title: Olfactory_Epithelium_Rat-10

source_name: Olfactory epithelium of rat 10 (litter1)


title: Olfactory_Epithelium_Rat-7B

status: Public on Nov 01 2009

type: RNA

city: RENNES

first: Francis

last: Galibert

address: 2 av du Pr Léon Bernard

department: Génétique et Developpement

country: France

institute: CNRS UMR6061/Université Rennes1

hyb_protocol: Hybridization was performed using the Agilent Gene Expression Hybridization kit (p/n 5188-5242), following the manufacturer’s instructions. Briefly, 1650 ng of labeled cRNA was mixed with Hybridization Buffer and Blocking Agent and subjected to fragmentation (by incubation for 30 min at 60°C in the dark). Hybridizations onto 4x44K Whole Rat Genome 60-mer oligonucleotide microarrays (G4131F) (Agilent Technologies) were performed in a rotary oven (65°C, 17 h and 10 rpm) in the dark. Slides were disassembled and washed in Gene Expression wash Buffers I and II according to the manufacturer’s instructions, and dried using a nitrogen-filled air gun before scanning.

scan_protocol: Microarrays were scanned with a dynamic autofocus microarray scanner (Agilent DNA Microarray Scanner), using Agilent parameters. Feature Extraction software version 9.5 was used to extract and analyze the signals.

data_processing: Array results were analyzed using GeneSpring GX software version 7.3 (Agilent Technologies), via the Enhanced Agilent Feature Extraction Import Preprocessor.  Data were normalized in two steps using the algorithms supplied with the Feature Extraction software. Data were first transformed to convert any negative value to 0.01, then normalization was performed by using a per-chip 50th percentile method that normalizes each chip to its median, allowing comparison between chips. A second normalization step was applied to the results for each gene across all the arrays in the study (normalize to median): the median of all the values obtained for a given gene was calculated and used as the normalization standard for that gene, such that, regardless of absolute differences in the expression of the various genes, they are placed on the same scale for comparison.

molecule: total RNA

organism: Rattus norvegicus

source_name: Olfactory epithelium of rat 7, nostril B

label_protocol: RNA samples were labeled using the Agilent Low RNA Input Fluorescent Linear Amplification kit (p/n 5184-3523) according to the manufacturer’s instructions. Briefly, 350 ng of total RNA was used as template and copied into cDNA by reverse transcription and concomitant amplification with T7-polymerase; cyanine-3 (Cy3)-labeled CTP was used for labeling. Cy3 labeling was monitored with a Nanodrop ND-1000 spectrophotometer and was found to be between 1.2 and 1.9 pmol/μl.

extract_protocol: Total RNA was isolated using the Nucleospin RNA kit according to the manufacturer’s (Macherey-Nagel) instructions, which included an in-column DNase treatment before RNA elution to ensure the absence of genomic DNA. Recovered RNA was quantified using a Nanodrop ND-1000 spectrophotometer (NanoDrop Technologies), and RNA integrity was assessed with RNA 6000 Nano LabChip kit using the Agilent 2100 Bioanalyzer (Agilent Technologies). Only RNA samples with an RNA Integrity Number (RIN) greater than 8.5 were used for further analysis (RNA profiling analysis and semi-quantitative reverse transcription PCR analysis). Because of the application of this strict quality threshold, the left sample from one adult olfactory epithelium was not studied.

tag: strain

value: Brown Norway

tag: tissue

value: Olfactory epithelium

tag: gender

value: Female

tag: age

value: 6 weeks


title: Olfactory_Epithelium_Rat-6B

source_name: Olfactory epithelium of rat 6, nostril B

value: Male


title: Olfactory_Epithelium_Rat-14B

source_name: Olfactory epithelium of rat 14, nostril B

extract_protocol: Total RNA was isolated using the Nucleospin RNA kit according to the manufacturer’s (Macherey-Nagel) instructions, which included an in-column DNase treatment before RNA elution to ensure the absence of genomic DNA. Recovered RNA was quantified using a Nanodrop ND-1000 spectrophotometer (NanoDrop Technologies), and RNA integrity was assessed with RNA 6000 Nano LabChip kit using the Agilent 2100 Bioanalyzer (Agilent Technologies). Only RNA samples with an RNA Integrity Number (RIN) greater than 8.5 were used for further analysis (RNA profiling analysis and semi quantitative reverse transcription PCR analysis). Because of the application of this strict quality threshold, the left sample from one adult olfactory epithelium was not studied.

value: 9 weeks


title: Olfactory_Epithelium_Rat-7A

source_name: Olfactory epithelium of rat 7, nostril A


title: Olfactory_Epithelium_Rat-5A

source_name: Olfactory epithelium of rat 5, nostril A


title: Olfactory_Epithelium_Rat-13A

source_name: Olfactory epithelium of rat 13, nostril A


title: Olfactory_Epithelium_Rat-4B

source_name: Olfactory epithelium of rat 4, nostril B


title: Olfactory_Epithelium_Rat-6A

source_name: Olfactory epithelium of rat 6, nostril A


title: Olfactory_Epithelium_Rat-4A

source_name: Olfactory epithelium of rat 4, nostril A


title: Olfactory_Epithelium_Rat-8B

source_name: Olfactory epithelium of rat 8, nostril B


title: Olfactory_Epithelium_Rat-3B

source_name: Olfactory epithelium of rat 3, nostril B


title: Olfactory_Epithelium_Rat-3A

source_name: Olfactory epithelium of rat 3, nostril A


title: Olfactory_Epithelium_Rat-2A

source_name: Olfactory epithelium of rat 2, nostril A


title: Olfactory_Epithelium_Rat-2B

source_name: Olfactory epithelium of rat 2, nostril B


title: 24-AI-NP4-4522 (AI-Cancer-MET)

city: Cincinnati

first: Bruce

middle: J

last: Aronow

state: OH

country: USA

institute: Cincinnati Children's Hospital Medical Center

hyb_protocol: Hybridization was carried out at 45°C for 16 hours in 200 µl of cocktail containing 20 µg of biotinilated RNA probe according to the Affymetrix Standard Protocol; post hybridization washing and antibody enhancement staining were performed using EukGE-WS2v4 protocol on Affymetrix Fluidics Station.

scan_protocol: GeneChips were scanned and quantified using an Affymetrix Gene Array scanner and GeneChip Operating Software V1.4 (default settings.)

data_processing: Microarrays were analyzed with Affymetrix Microarray Suite 5.0 to generate “CEL” files that were processed using Robust Multichip Analysis (RMA) in Bioconductor/R.

label: biotin

organism: Mus musculus

source_name: AI-Cancer-MET

label_protocol: Labeling of cRNA was carried out using a BioArray High Yield RNA transcript labeling kit (Enzo Life Scientific). Twenty µg of biotinilated RNA probe was fragmented and hybridized to MOE430A GeneChips (Affymetrix).

growth_protocol: Mouse prostate was collected from wild-type or the Nkx3.1; Pten compound mutant mice at the age of 8-16 months. One lobe of dosolateral prostate was snap-frozen in OCT and stored at -80ºC for laser capture microdissection (LCM). Approximate 1000 Prostate epithelial cells were isolated from normal prostate, dysplasia, prostatic intraepithelial neoplasia (PIN) or cancer lesions using PixCell IIE LCM system (Arcturus).

extract_protocol: RNA was prepared using the PicoPure RNA isolation kit (Arcturus), followed by RNA linear amplification and labeling using Small Sample Labeling Protocol VII (Affymetrix).

value: prostate

tag: phenotype

value: AI-Cancer-MET

tag: genotype

value: NP


title: 16-NP5-8643 (HGPIN-Cancer)

source_name: HGPIN-Cancer

value: HGPIN-Cancer


title: 18-TH4-8361 (Dysplasia-LGPIN)

source_name: Dysplasia-LGPIN

value: Dysplasia-LGPIN

value: TH


title: 23-AI-NP3-3584 (AI-Cancer-MET)


title: 17-TH2-8054 (HGPIN-Cancer)


title: 26-AI-NP6-5338 (AI-Cancer-MET)


title: 20-AI-P1-4903 (AI-HGPIN)

source_name: AI-HGPIN

value: AI-HGPIN

value: P


title: 14-NP3-8184 (Dysplasia-LGPIN)


title: 19-AI-NP1-4901 (AI-HGPIN)


title: 21-AI-NP2-4904 (AI-HGPIN)


title: Olfactory_Epithelium_Rat-1A

source_name: Olfactory epithelium of rat 1, nostril A


title: 22-AI-P2-4905 (AI-HGPIN)


title: 10-P2-6245 (HGPIN-Cancer)


title: Olfactory_Epithelium_Rat-13B

source_name: Olfactory epithelium of rat 13, nostril B


title: 12-NP1-5472 (HGPIN-Cancer)


title: 03-WT3-3616 (Normal)

source_name: Normal

value: Normal

value: WT


title: 04-WT4-6189 (Normal)


title: 09-P1-6108 (HGPIN-Cancer)


title: 06-N2-3442 (Dysplasia-LGPIN)

value: N


title: 11-P3-6934 (Dysplasia-LGPIN)


title: 08-N4-3583 (Dysplasia-LGPIN)


title: 05-N1-1421 (Dysplasia-LGPIN)


title: 13-NP2-6490 (HGPIN-Cancer)


title: 02-WT2-3578 (Normal)


title: 07-N3-3459 (Dysplasia-LGPIN)


title: wt lenses at E13.5, biological rep2

status: Public on Oct 28 2009

city: Bethesda

first: Yan

last: Li

state: MD

address: 5625 Fishers Lane, Room 1S-02

institute: NIH\NEI

description: Gene expression data from wild type E13.5 embryos

hyb_protocol: 5.5 ug of sense strand cDNA  were hybridized for 17+ hr at 45C on GeneChip Mouse Gene ST array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450

scan_protocol: GeneChips were scanned using the Affymetrix GeneArray Scanner 3000 7G

data_processing: The data were analyzed with GeneChip Operating System (GCOS) using Affymetrix default analysis settings and global scaling as normalization method.

source_name: lenses from the wild type embryo at E13.5

label_protocol: Biotinylated sense strand cDNA were prepared according to the standard Affymetrix protocol from 100 ng total RNA (GeneChip® Whole Transcript (WT) Sense Target Labeling Assay)

growth_protocol: To generate targeted deletion of Dicer gene, the Le-Cre mice in which the Pax6 P0 promoter drives the expression of Cre recombinase in the surface ectoderm-derived corneal and lens epithelium from E9.0 onward  were mated to the mice that had LoxP sites inserted in the Dicer gene (Murchison et al., 2005). The heterozygous progeny were crossed to obtain Le-Cre+/- ;DicerloxP/loxP (DicerCN) and Le-Cre-/-;DicerloxP/loxP (control) offsprings.

extract_protocol:
Intact lenses were dissected from five control and five DicerCN mice at E13.5 and immediately snap-frozen in liquid nitrogen. The pair of lenses from each mouse was combined for isolation of total RNAs so that five independent samples for each group (WT versus DICER lenses) were submitted for gene expression analysis.
Trizol extraction of total RNA was performed according to the manufacturer's instructions.

value: embryonic lenses at E13.5

value: Le-Cre-/- ;DicerloxP/loxP

value: mouse embryo at E13.5


title: 01-WT1-3577 (Normal)


title: PBMC p30 Total RNA

status: Public on Oct 13 2009

city: Kansas City

first: Christophe

last: Nicot

state: KS

address: 3901 Rainbow Blvd.

department: Pathology and Lab Medicine

institute: University of Kansas Medical Center

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HumanU133 plus 2.0 3' expression arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 using the EukGE-WS2v4 fluidics profile.

scan_protocol: A single pass scan of the GeneChips was performed using the Affymetrix GeneChip Scanner 3000 7G.

data_processing: The GeneChip data was analyzed using the Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings with all probe sets scaled to 500 and a normalization value of 1.0.

label: Biotin

organism: Homo sapiens

source_name: Peripheral Blood Mononuclear Cells

label_protocol: Biotin labeled cRNA was prepared from 4.5ug Total RNA using the standard Affymetrix target preparation protocol ( GeneChip Expression Analysis Technical Manaual, 2001, Affymetrix)

growth_protocol: PBMCs were isolated and maintained in RPMI/20% fetal calf serum + Interleukin-2 prior to lentivirus infection

extract_protocol: Total RNA was extracted with Trizol as per manufacturer's instructions; cytoplasmic RNA was isolated following fractionation in a hypotonic lysis buffer (10mM HEPES pH7.9, 1mM MgCl2, 0.5mM CaCl2), followed by 0.27% NP-40 for 30 seconds, subsequent extraction with chloroform, and precipitation with isopropanol.

treatment_protocol: Cells were co-cultured with mock or p30-lentivirus producer 293T cells for 48 hours prior to harvest.

tag: cell type

value: PBMC


title: Dicer lenses at E13.5, biological rep1

description: Gene expression data from DicerCN E13.5 embryos

source_name: lenses from the DicerCN embryo at E13.5

value: Le-Cre+/- ;DicerloxP/loxP


title: wt lenses at E13.5, biological rep3


title: Dicer lenses at E13.5, biological rep5


title: wt lenses at E13.5, biological rep4


title: 25-AI-NP5-4896 (AI-Cancer-MET)


title: PBMC Total RNA


title: 15-NP4-8396 (Dysplasia-LGPIN)


title: Dicer lenses at E13.5, biological rep2


title: Dicer lenses at E13.5, biological rep3


title: Dicer lenses at E13.5, biological rep4


title: PBMC p30 Cytoplasmic RNA

molecule: cytoplasmic RNA


title: PBMC Cytoplasmic RNA


title: Retic_12_mut_Rep4

status: Public on Oct 12 2009

city: Boston

first: meng

last: tian

state: MA

address: 320 Longwood Ave Enders1110

department: Pathology

institute: Children's Hospital Boston

hyb_protocol: standard illumina DASL gene expression protocol

data_processing: Raw data was processed through Rosetta Resolver

source_name: reticulocyte 12 hour mutant

extract_protocol: Total RNA from reticulocyte was extracted and amplified RNA with the RNeasy (Qiagen)Illumina Total Prep RNA Amplification Kits, respectively, following the manufacture's instruction

value: male

value: reticulocyte

value: adult


title: Retic_0_mut_Rep2

scan_protocol: standard illumina DASL gene expression protocol

source_name: reticulocyte 0 hour mutant


title: Retic_24_mut_Rep1

source_name: reticulocyte 24 hour mutant

label_protocol: standard illumina DASL gene expression protocol


title: Retic_12_mut_Rep5


title: Retic_0_mut_Rep4


title: Retic_24_mut_Rep5


title: wt lenses at E13.5, biological rep5


title: Retic_24_wt_Rep2

source_name: reticulocyte 24 hour wild type


title: Retic_24_mut_Rep2


title: Retic_24_mut_Rep3


title: Retic_12_mut_Rep2


title: Retic_0_mut_Rep1


title: Retic_0_mut_Rep3


title: Retic_0_mut_Rep5


title: Retic_24_mut_Rep4


title: Retic_0_wt_Rep2

source_name: reticulocyte 0 hour wild type


title: Retic_12_wt_Rep1

source_name: reticulocyte 12 hour wild type


title: Retic_0_wt_Rep3


title: Retic_24_wt_Rep3


title: Retic_12_mut_Rep3


title: Retic_24_wt_Rep1


title: Retic_12_wt_Rep2


title: 00026113

status: Public on Oct 01 2009

city: Valbonne - Sophia-Antipolis

first: Kevin

last: Lebrigand

address: 660 route des lucioles

institute: IPMC/CNRS

description:
A549_3AB_Cy5 vs A549_HD6_Cy3
Date:2005/11/17

hyb_protocol: CGH-Agilent-4rpm : 750.0 ng at 62 degree_C during 17 hours

scan_protocol: Scanned on an GenePix 4000B fluorescent scanner. Image intensity data were extracted with GenePix Pro 6.0 analysis software.

data_processing: Interslide norm.: quantile, Intraslide norm.: printtiploess, Background norm.: Kooperberg, Software used: rscript --> VALUE data obtained from log of processed Red signal/processed Green signal.

source_name: A549 cell line treated with a siRNA against ATAD2 (Cy5)

label_protocol: Ambion

extract_protocol: Chomzynski

tag: Tissue

value: cell line

source_name: A549 cell line treated with a control siRNA (Cy3)


title: 00039696

description:
H1299_HD6_Cy3 vs H1299_3AB_Cy5
Date:2005/11/17

source_name: H1299 cell line treated with a control siRNA (Cy3)

source_name: H1299 cell line treated with a siRNA against ATAD2 (Cy5)


title: 00039694

description:
H1299_3AB_Cy3 vs H1299_HD6_Cy5
Date:2005/11/17

data_processing: Interslide norm.: quantile, Intraslide norm.: printtiploess, Background norm.: Kooperberg, Software used: rscript --> VALUE data obtained from log of processed Green signal/processed Red signal.

source_name: H1299 cell line treated with a siRNA against ATAD2 (Cy3)

source_name: H1299 cell line treated with a control siRNA (Cy5)


title: Retic_12_wt_Rep3


title: wt lenses at E13.5, biological rep1


title: 00039693

description:
SAOS siRNA HD6 Cy3 vs SAOS siRNA 3AB Cy5
Date:2005/11/17

source_name: SAOS cell line treated with a control siRNA (Cy3)

tag: Labeling_reference:SAOS siRNA HD6 Cy3

value: SAOS siRNA HD6

value: SAOS

source_name: SAOS cell line treated with a siRNA against ATAD2 (Cy5)

tag: Labeling_reference:SAOS siRNA 3AB Cy5

value: SAOS siRNA 3AB


title: Retic_0_wt_Rep1


title: Patient 13, acute

city: Madrid

first: Teresa

last: Bellón

state: Madrid

address: Pº Castellana 261

department: Research Unit

country: Spain

institute: Hospital La Paz

description: Plastic microarrays made with long (80bp) experimentally-tested oligonucleotides. Contains sequences from more than 11800 genes spotted in duplicates . Positive control DNA was spotted on 786 spots. Phage lambda DNA was spotted on 66 spots for negative control. Therfore, a total of 852 spot data were already eliminated from  the whole 24576 spot data on the 12K microarray

hyb_protocol: Plastic membranes fromn the same lot were used throughout the study. Membranes were prehybridized for for at least 1 hour at 60ºC in BD PlasticHyb Hybridization Solution, hybridized overnight  with the denatured radiolabelled probe, and then washed twice 5 min at 58ºC in 2xSSC/0,1%SDS, twice 5min at 58ºC in 0,1xSSC/0,1%SDS and 5 min at RT in 0,1% SSC.

scan_protocol: The arrays were then directly 6 exposed for 24-72 hours to a phosphorimager screen. Images were scaned at  600 dpi resolution in a Cyclone Plus Phosphor Imager. Images of the hybridized arrays were processed with phoretics array software (Nonlinear Dynamics Inc), and signal intensities quantified as volume of the spots.

data_processing: The raw data were normalized to the 100% of the mean volume of all the spots in the array.

source_name: peripheral blood mononuclear cells

label_protocol: 1 microgram of polyA+RNA was reverse transcribed using random primers and PowerScript reverse transcriptase (BD Clontech) in the presence of 70 microCi of [33P]dATP according to the manufacturer's instructions. Labelled cDNA was purified by column chromatography in NucleoSpin Extraction Spin Columns

extract_protocol: Total RNA was purified from PBMCs and polyA+RNA was further purified with Oligotex Direct mRNA kit (Quiagen)

tag: Disease

value: DRESS

tag: Status

value: Acute disease

tag: AGE

tag: Sex

value: Female


title: Patient 11, acute

value: Stevens Johnson syndrome


title: Patient 12, acute

value: Fixed drug eruption

value: Male


title: Patient 10, resolution

value: Erythema multiforme

value: Healthy


title: Patient 10, acute


title: 00026017

description:
A549_3AB_Cy3 vs A549_HD6_Cy5
Date:2005/11/17

source_name: A549 cell line treated with a siRNA against ATAD2 (Cy3)

source_name: A549 cell line treated with a control siRNA (Cy5)


title: NHGRI_TRMT12-siRNA-2_hv35568

first: Christopher

last: Pan

address: Rm 5228, Bldg 50, South Dr.

department: NHGRI

institute: NIH

description: Human Breast cell line

hyb_protocol: 200 picomoles of Cy3 and 100 picomoles of Cy5 labeled cRNAs are put in a total volume of 24 ul (qsp with DEPC H20) and 6 microliter of 5x fragmentation buffer from Affymetrix. the mixture is incubated at 94 ¡C for 15 minutes. Then, 25 ul of 2X  hybridization buffer is added (250 _l Formamide, 250 _l 20xSSC and 20 _l 10%SDS). The mixture is then denatured for 2 minutes and applied on the Maui (BioMicro Systems, Inc) hybridization chamber/ array slide sandwich. The hybridization is performed at 45 degre for 20 hours.

scan_protocol: Agilent Scanner

data_processing:
Lowess normalized log2 r/g ratio.
Please note that the data for dye-swap experiments ( hv35565, hv35568, hv35571) was reversed in the raw data already, so that the ratios are in the same direction as the first two replicates.

source_name: SKbr3 TRMT12 siRNA-2

label_protocol: 1.0 microgram of total RNA was reverse transcribed with T7 Oligo-dT, followed by a second strand synthesis and overhight i9n vitro transcription in the presence of  Aminoallyl UTPs using the Amino Allyl MessageAmpª II aRNA Amplification kit from Ambion (Kit Cat#1753). The Aminoallyl UTP labeled cRNAs are then coupled with either Cy3 or Cy5 mono NHS Ester Dyes. The CyDyes labeled cRNAs are then purified with columns and reagents provided by the Kit (Cat#1753).

extract_protocol: RNA was extracted with Trizol/Chloroform method according to manifecturer protocol and the RNA is further purified by the Qiagen RNAeazy columns

tag: cell line

source_name: SKbr3 control siRNA-2

label_protocol: 1.0 microgram of total RNA was reverse transcribed with T7 Oligo-dT, followed by a second strand synthesis and overhight in vitro transcription in the presence of  Aminoallyl UTPs using the Amino Allyl MessageAmpª II aRNA Amplification kit from Ambion (Kit Cat#1753). The Aminoallyl UTP labeled cRNAs are then coupled with either Cy3 or Cy5 mono NHS Ester Dyes. The CyDyes labeled cRNAs are then purified with columns and reagents provided by the Kit (Cat#1753).


title: Patient 11, resolution


title: NHGRI_TRMT12-siRNA-3_hv35571

description: Human Breast cell line

source_name: SKbr3 TRMT12 siRNA-3

source_name: SKbr3 control siRNA-3


title: Patient 8, acute


title: Patient 9, resolution


title: NHGRI_TRMT12-siRNA-1_hv35565

description: Human Breast cell line

source_name: SKbr3 TRMT12 siRNA-1

source_name: SKbr3 control siRNA-1


title: 00039692

description:
SAOS siRNA 3AB Cy3 vs SAOS siRNA HD6  Cy5
Date:2005/11/17

source_name: SAOS cell line treated with a siRNA against ATAD2 (Cy3)

tag: Labeling_reference:SAOS siRNA 3AB Cy3

value: SAOS siRNA

source_name: SAOS cell line treated with a control siRNA (Cy5)

tag: Labeling_reference:SAOS siRNA HD6  Cy5


title: Patient 12, resolution


title: Patient 9, acute


title: Patient 8, resolution


title: Patient 13, resolution


title: Patient 7, acute


title: Patient 4, acute


title: Patient 6, acute

value: Maculopapular exanthema


title: Patient 5, acute


title: Patient 6, resolution


title: Patient 3, acute


title: Patient 7, resolution


title: Patient 3, resolution


title: Patient 4, resolution


title: Patient 2, acute


title: Patient 2, resolution


title: Retic_12_mut_Rep1

source_name: reticulocyte 12 hour mutant

value: male

tag: strain


title: Patient 1, acute


title: VLcmT clone 3, bio rep 3a, TAg Cy5/wt Cy3

status: Public on Sep 01 2009

city: Tampa

first: Ulka

last: Sachdev-Ost

state: FL

address: 12901 Bruce B. Downs Blvd.

institute: University of South Florida

description: VLcmT3a technical replicate 1

hyb_protocol: The cDNA was applied to an Agilent Mouse cDNA microarray (Agilent Technologies, G4104A) for 17 hours at 65°C. The array was washed and dried as recommended by the manufacturer.

scan_protocol: Using an Affymetrix GMS418 scanner, two images from each array were extracted by exciting the Cy3 dye at 532nm and the Cy5 dye at 635nm and saved as a 16-bit TIFF file. The Cy3 and Cy5 image were aligned and quantitated with Imagene 4.2 (Biodiscovery). The entire array was scanned manually to identify and flag any spots that were masked by debris or scratches.

data_processing: We flagged any spots whose Signal Mean was not greater than the Background Median plus two times the Background Standard Deviation. Also, all control features on each array were flagged. Each array also contained a set of features that were flagged by Agilent. All unflagged spots were background subtracted by taking the difference of the Signal Mean and the Background Median. The background subtracted signals were normalized with a lowess intensity-dependent smoother using BRB-Array Tools (Rich Simon, National Cancer Institute) except that the lowess span parameter was changed from 0.4 to 0.2. A log ratio was calculated for each biological replicate by averaging its two dye-flip log ratios.

source_name: VLcmT3 (Cy5)

label_protocol: Total RNA was isolated and converted to Cy3- and Cy5-labeled cDNA in independent reactions. 15ug of total RNA was placed in a reaction that contained 7.5ug of Random Primers in a total volume of 15.4ul and placed at 70°C for 10min. After chilling the reactions on ice, labeled cDNA was prepared by adding 3ul of 1mM Cy3-dUTP or 1mM Cy5-dUTP and 11.6ul of a reverse transcription cocktail and the reaction was incubated at 42°C for 2 hours. The final concentration of the reagents were 13.3 U/ul  SuperScript II Reverse Transcriptase, 1X first strand buffer, 10mM DTT, 0.5 mM each dATP, dCTP, dGTP and 0.2mM of dTTP. RNA was degraded by adding 1.5ul of 1N NaOH and 1.0ul of 60mM EDTA to each reaction and incubated at 65°C for 10 minutes. 470ul of TE pH 7.4 was added to the reaction and applied to a Microcon-30 filter. The reactions were centrifuged for 7 min at 8,500g and washed once with 400ul of TE pH7.4 to remove unincorporated dyes. Filters were centrifuged upside-down to harvest the labeled cDNA (~50ul). Next, a cDNA labeled with Cy3 was mixed with a cDNA labeled with Cy5 and purified using the QIAQuick Kit. After completely drying the cDNA in a vacuum centrifuge, the labeled cDNA was resuspended in 7.5ul of dH2O.

growth_protocol: All mice were maintained in an animal facility without restriction to food or water. Mice were sacrificed and their entire small intestine was removed, opened longitudinally and washed in saline solution. The middle 1/3 of the small intestine (“whole intestine”) was harvested and whole intestine rolls were prepared. Rolls were processed to isolate villi cell types by laser capture microscopy (LCM). Briefly, the rolls were quickly frozen and stored at -80°C. Frozen sections were cut and immediately dehydrated in graded alcohol solutions. The dried sections were examined microscopically and the top 2/3rds of 50 villous segments from each section were collected using a laser capture microscope (Pix Cell II, Arcturus, Mt. View, CA). The captured tissue (VLcm) was extracted in Pico Pure extraction buffer (Arcturus) according to the manufacturer’s directions and stored at -80°C

extract_protocol: Total RNA was isolated with the PicoPure kit (Arcturus) and amplified twice with the RiboAmp kit (Arcturus).

tag: villi enterocytes captured by LCM (VLcm) of TAg transgenic mice

source_name: VLcm.wt3 (Cy3)

tag: villi enterocytes captured by LCM (VLcm) of wild-type


title: VLcmT clone 3, bio rep 3a, dyeflip TAg Cy3/wt Cy5

description: VLcmT3a technical replicate 2 (dye-flip)

source_name: VLcm.wt3 (Cy5)

source_name: VLcmT3 (Cy3)


title: VLcmT clone 3, bio rep 3b, TAg Cy5/wt Cy3

description: VLcmT3b technical replicate 1


title: VLcmT clone 3, bio rep 3b, dyeflip TAg Cy3/wt Cy5

description: VLcmT3b technical replicate 2 (dye-flip)


title: VLcmT clone 2, bio rep 2, dyeflip TAg Cy3/wt Cy5

description: VLcmT2 technical replicate 2 (dye-flip)

source_name: VLcm.wt2 (Cy5)

source_name: VLcmT2 (Cy3)


title: VilliT clone 3, bio rep 3, dyeflip TAg Cy3/wt Cy5

description: VilliT3 technical replicate 2 (dye-flip)

source_name: Villi.wt3 (Cy5)

label_protocol: Total RNA was isolated and converted to Cy3- and Cy5-labeled cDNA in independent reactions. 15ug of total RNA was placed in a reaction that contained 6ug of oligo-dT in a total volume of 15.4ul and placed at 70°C for 10min. After chilling the reactions on ice, labeled cDNA was prepared by adding 3ul of 1mM Cy3-dUTP or 1mM Cy5-dUTP and 11.6ul of a reverse transcription cocktail and the reaction was incubated at 42°C for 2 hours. The final concentration of the reagents were 13.3 U/ul  SuperScript II Reverse Transcriptase, 1X first strand buffer, 10mM DTT, 0.5 mM each dATP, dCTP, dGTP and 0.2mM of dTTP. RNA was degraded by adding 1.5ul of 1N NaOH and 1.0ul of 60mM EDTA to each reaction and incubated at 65°C for 10 minutes. 470ul of TE pH 7.4 was added to the reaction and applied to a Microcon-30 filter. The reactions were centrifuged for 7 min at 8,500g and washed once with 400ul of TE pH7.4 to remove unincorporated dyes. Filters were centrifuged upside-down to harvest the labeled cDNA (~50ul). Next, a cDNA labeled with Cy3 was mixed with a cDNA labeled with Cy5 and purified using the QIAQuick Kit. After completely drying the cDNA in a vacuum centrifuge, the labeled cDNA was resuspended in 7.5ul of dH2O.

growth_protocol: All mice were maintained in an animal facility without restriction to food or water. Mice were sacrificed and their entire small intestine was removed, opened longitudinally and washed in saline solution. The middle 1/3 of the small intestine (“whole intestine”) was harvested and further processed to enrich for villi structures (Markovics et al, J. Virol 2005).

extract_protocol: Total RNA was isolated using the RNeasy kit (Qiagen) with on-column DNase digestion.

tag: fractionated villi (Villi) of TAg wild-type

source_name: VilliT3 (Cy3)

tag: fractionated villi (Villi) of TAg transgenic mice


title: VilliT clone 3, bio rep 3, TAg Cy5/wt Cy3

description: VilliT3 technical replicate 1

source_name: VilliT3 (Cy5)

source_name: Villi.wt3 (Cy3)


title: VLcmT clone 1, bio rep 1, dyeflip TAg Cy3/wt Cy5

description: VLcmT1 technical replicate 2 (dye-flip)

source_name: VLcm.wt1 (Cy5)

source_name: VLcmT1 (Cy3)


title: WholeT clone 4, bio rep 4, TAg Cy5/wt Cy3

description: WholeT4 technical replicate 1

source_name: WholeT4 (Cy5)

growth_protocol: All mice were maintained in an animal facility without restriction to food or water. Mice were sacrificed and their entire small intestine was removed, opened longitudinally and washed in saline solution. The middle 1/3 of the small intestine (“whole intestine”) was harvested and used to extract RNA.

tag: unfractionated (whole) small intestine of TAg transgenic mice

source_name: Whole.wt4 (Cy3)

tag: unfractionated (whole) small intestine of wild-type


title: VilliT clone 4, bio rep 4, TAg Cy5/wt Cy3

description: VilliT4 technical replicate 1

source_name: VilliT4 (Cy5)

source_name: Villi.wt4 (Cy3)


title: WholeT clone 3, bio rep 3, dyeflip TAg Cy3/wt Cy5

description: WholeT3 technical replicate 2 (dye-flip)

source_name: Whole.wt3 (Cy5)

source_name: WholeT3 (Cy3)


title: VilliT clone 1, bio rep 1, TAg Cy5/wt Cy3

description: VilliT1 technical replicate 1

source_name: VilliT1 (Cy5)

source_name: Villi.wt1 (Cy3)


title: VilliT clone 4, bio rep 4, dyeflip TAg Cy3/wt Cy5

description: VilliT4 technical replicate 2 (dye-flip)

source_name: Villi.wt4 (Cy5)

source_name: VilliT4 (Cy3)


title: WholeT clone 4, bio rep 4, dyeflip TAg Cy3/wt Cy5

description: WholeT4 technical replicate 2 (dye-flip)

source_name: Whole.wt4 (Cy5)

source_name: WholeT4 (Cy3)


title: VilliT clone 2, bio rep 2, TAg Cy5/wt Cy3

description: VilliT2 technical replicate 1

source_name: VilliT2 (Cy5)

source_name: Villi.wt2 (Cy3)


title: VLcmT clone 2, bio rep 2, TAg Cy5/wt Cy3

description: VLcmT2 technical replicate 1

source_name: VLcmT2 (Cy5)

source_name: VLcm.wt2 (Cy3)


title: VilliT clone 2, bio rep 2, dyeflip TAg Cy3/wt Cy5

description: VilliT2 technical replicate 2 (dye-flip)

source_name: Villi.wt2 (Cy5)

source_name: VilliT2 (Cy3)


title: VilliT clone 1, bio rep 1, dyeflip TAg Cy3/wt Cy5

description: VilliT1 technical replicate 2 (dye-flip)

source_name: Villi.wt1 (Cy5)

source_name: VilliT1 (Cy3)


title: VLcmT clone 1, bio rep 1, TAg Cy5/wt Cy3

description: VLcmT1 technical replicate 1

source_name: VLcmT1 (Cy5)

source_name: VLcm.wt1 (Cy3)


title: WholeT clone 3, bio rep 3, TAg Cy5/wt Cy3

description: WholeT3 technical replicate 1

source_name: WholeT3 (Cy5)

source_name: Whole.wt3 (Cy3)


title: MEFT clone 5, bio rep 3, TAg Cy5/wt Cy3

description: MEFT5 technical replicate 1

source_name: MEFT5 (Cy5)

growth_protocol: All cells were grown in DMEM + 10% Fetal Bovine Serum + Penn/Strep. Only MEFT cell media was supplemented with 400ug/ml G418. Cells were grown to confluence and fed with fresh medium. After two days, cells were harvested with trypsin, washed 3X with PBS-EDTA and cell pellet was frozen until RNA isolation.

tag: MEF-T cell line stably expressing SV40 Large TAg

source_name: MEFwt (Cy3)

tag: parental MEF


title: WholeT clone 2, bio rep 2, TAg Cy5/wt Cy3

description: WholeT2 technical replicate 1

source_name: WholeT2 (Cy5)

source_name: Whole.wt2 (Cy3)


title: WholeT clone 2, bio rep 2, dyeflip TAg Cy3/wt Cy5

description: WholeT2 technical replicate 2 (dye-flip)

source_name: Whole.wt2 (Cy5)

source_name: WholeT2 (Cy3)


title: WholeT clone 1, bio rep 1, TAg Cy5/wt Cy3

description: WholeT1 technical replicate 1

source_name: WholeT1 (Cy5)

growth_protocol: All mice were maintained in an animal facility without restriction to food or water

treatment_protocol: Mice were sacrificed and their entire small intestine was removed, opened longitudinally and washed in saline solution. The middle 1/3 of the small intestine (“whole intestine”) was harvested and used to extract RNA.

source_name: Whole.wt1 (Cy3)


title: MEFT clone 4, bio rep 2, TAg Cy5/wt Cy3

description: MEFT4 technical replicate 1

source_name: MEFT4 (Cy5)


title: MEFT clone 4, bio rep 2, dyeflip TAg Cy3/wt Cy5

description: MEFT4 technical replicate 2 (dye-flip)

source_name: MEFwt (Cy5)

source_name: MEFT4 (Cy3)


title: WholeT clone 1, bio rep 1, dyeflip TAg Cy3/wt Cy5

description: WholeT1 technical replicate 1 (dye-flip)

source_name: Whole.wt1 (Cy5)

source_name: WholeT1 (Cy3)


title: MEFT clone 2, bio rep 1, dyeflip TAg Cy3/wt Cy5

description: MEFT2 technical replicate 2 (dye-flip)

source_name: MEFT2 (Cy3)


title: MEFT clone 2, bio rep 1, TAg Cy5/wt Cy3

description: MEFT2 technical replicate 1

source_name: MEFT2 (Cy5)


title: Patient 5, resolution

source_name: peripheral blood mononuclear cells


title: Folsomia candida_desiccation_53hours_01

city: Amsterdam

first: Martijn

middle: Johannes

last: Timmermans

address: De Boelelaan 1085

department: Animal Ecology

country: Netherlands

institute: Vrije Universiteit Amsterdam

hyb_protocol: Agilent Gene Expression Hybridization Kit (Agilent Technologies) was used for hybridization (4 rpm, 65 ºC, and 17 hours of incubation). Afterwards the array was washed using Agilent's Gene Expression Wash Buffer.

scan_protocol: An Agilent DNA microarray scanner in combination with Feature Extraction software (version 9.1.3.1) was used to measure fluorescence intensities.

data_processing: Data normalization was performed in R (http://www.R-project.org/) using the R/LIMMA (2.9.1) package (Smyth, 2005). Edward’s background correction (offset = 30) (Edwards, 2003) and global loess normalization (Yang et al., 2002) were applied.

organism: Folsomia candida

source_name: Folsomia candida, reference, 53hours

label_protocol: Agilent Low-Input Fluorescent Linear Amplification Kit was used to amplify and label 500 ng input material. The labelling reactions were performed in half of the volume recommended by Agilent. RNEasy (Qiagen) clean up was performed before hybridization.

extract_protocol: Promega SV Total RNA isolation System

tag: humidity

value: 100% Relative Humidity

tag: time

value: 'Berlin' Strain; VU Amsterdam

tag: reference

value: ~25 pooled 25-27 day old individuals maintained at 100% Relative Humidity

source_name: Folsomia candida, desiccation, 53hours

tag: test

value: ~25 pooled 25-27 day old individuals maintained at 98.2% Relative Humidity (desiccated groups)


title: Folsomia candida_desiccation_53hours_04

value: 98.2% Relative Humidity (desiccated groups)


title: Folsomia candida_desiccation_53hours_02


title: MEFT clone 5, bio rep 3, dyeflip TAg Cy3/wt Cy5

description: MEFT5 technical replicate 2 (dye-flip)

source_name: MEFT5 (Cy3)


title: Folsomia candida_desiccation_174hours_04

source_name: Folsomia candida, desiccation, 174hours

source_name: Folsomia candida, reference, 174hours


title: Folsomia candida_desiccation_27hours_02

source_name: Folsomia candida, desiccation, 27hours

source_name: Folsomia candida, reference, 27hours


title: Folsomia candida_desiccation_53hours_03


title: Folsomia candida_desiccation_27hours_04


title: Folsomia candida_desiccation_174hours_03


title: Folsomia candida_desiccation_174hours_02


title: Folsomia candida_desiccation_8hours_04

source_name: Folsomia candida, desiccation, 8hours

source_name: Folsomia candida, reference, 8hours


title: Folsomia candida_desiccation_174hours_01


title: Folsomia candida_desiccation_8hours_03


title: Folsomia candida_desiccation_27hours_01


title: control_(by_contralateral_testicular_aplasia) 1

city: Basel

first: Edward

middle: James

last: Oakeley

address: Maulbeerstrasse 66

country: Switzerland

institute: Friedrich Miescher Institute for Biomedical Research

description: Total testicular tissue

hyb_protocol: Affymetrix recommended

scan_protocol: standard Affymetrix protocol

data_processing: RMA using the justRMA() function in the Affy package of Bioconductor

source_name: testes

label_protocol: Affymetrix recommended

extract_protocol: Cell pellets and tissues were sheared in RLT buffer (Qiagen) supplemented with 1% β-Mercaptoethanol and further processed using a Qiashredder (Qiagen). The suspension was centrifuged for 2 min at maximum speed and the clarified lysate was stored at -80°C. Total RNA isolation was performed using RNeasy Mini-Spin columns (Qiagen) according to standard protocols. RNA quality was monitored using RNA Nano 6000 Chips and the 2100 BioAnalyzer (Agilent).

treatment_protocol: RNA was taken from total testicular tissue

tag: tissue

value: total testicular


title: control_(by_contralateral_testicular_aplasia) 4

description: Total testicular tissue


title: Folsomia candida_desiccation_8hours_02


title: Folsomia candida_desiccation_27hours_03


title: Folsomia candida_desiccation_8hours_01


title: unilateral_cryptorchid 14

description: Total testicular tissue


title: unilateral_cryptorchid 13

description: Total testicular tissue


title: control_(by_contralateral_testicular_aplasia) 2

description: Total testicular tissue


title: unilateral_cryptorchid 11

description: Total testicular tissue


title: unilateral_cryptorchid 12

description: Total testicular tissue


title: bilateral_cryptorchid 1

description: Total testicular tissue


title: control_(by_contralateral_testicular_aplasia) 3

description: Total testicular tissue


title: bilateral_cryptorchid 2

description: Total testicular tissue


title: unilateral_cryptorchid 10

description: Total testicular tissue


title: Wild Type 8 hrs, biological rep4

city: Salamanca

first: Javier

last: De Las Rivas

address: Campus Miguel de Unamuno

department: CSIC and University of Salamanca

institute: Cancer Research Center (CiC-IBMCC)

description: Fibroblasts of different mice wild type, H-ras, N-ras and HN-ras KOs that were serum-starved for 24 hours, and them gene expression data from wild type (WT Control) and ras KO genotypes were obtained before (0 hour) or after short term (1hour, G0/G1 transition) or mid-term (8 hour, mid-G1 progression) post-starvation incubation of the cell cultures in the presence of 20% fetal bovine serum (FBS).

hyb_protocol: Following fragmentation, 10 ug of cRNA were hybridized according to the manufacturer's protocol on Mus musculus MGU74Av2 GeneChip high-density oligonucleotide microarrays. GeneChips were washed and stained in the Affymetrix Fluidics Station.

scan_protocol: GeneChips were scanned using the GeneChip Scanner 3000 7G.

data_processing: The data were analyzed using the RMA method for background correction, normalization and signal calculation of the complete dataset (39 microarrays). The method was use ir R with BioConductor tools.

source_name: Mus musculus cell lines from the appropriate ras genotype

label_protocol: Biotinylated cRNA were prepared according to the standard Affymetrix protocol from total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).

growth_protocol: Pre-confluent cultures of at least two separate cell lines belonging to each of the ras-related genotype(s) under study (WT, H-ras-/- and N-ras-/- and H-ras-/-/N-ras-/-) were harvested and their RNA  extracted for subsequent  analysis using Affymetrix high density  oligonucleotide microarrays MGU74Av2.

extract_protocol: Trizol extraction of total RNA was performed according to the manufacturer's instructions.

tag: cell type

value: Fibroblasts

tag: genotype

value: Wild Type

tag: condition

value: induced for 8 hour with 20% FBS


title: Patient 1, resolution

tag: Disease

tag: Status

tag: AGE

tag: Sex

value: Female


title: Wild Type 8 hrs, biological rep2

treatment_protocol: Fibroblasts of different mice wild type, H-ras, N-ras and HN-ras KOs that were serum-starved for 24 hours, and them gene expression data from wild type (WT Control) and ras KO genotypes were obtained before (0 hour) or after short term (1hour, G0/G1 transition) or mid-term (8 hour, mid-G1 progression) post-starvation incubation of the cell cultures in the presence of 20% fetal bovine serum (FBS).


title: Wild Type 8 hrs, biological rep3


title: unilateral_cryptorchid 8

description: Total testicular tissue


title: HN-ras KO 8 hrs, biological rep3

value: H-ras -/- and N-ras -/- double KO


title: N-ras KO 8 hrs, biological rep3

value: N-ras -/- KO


title: Wild Type 8 hrs, biological rep1


title: unilateral_cryptorchid 9

description: Total testicular tissue


title: HN-ras KO 8 hrs, biological rep1


title: unilateral_cryptorchid 5

description: Total testicular tissue


title: unilateral_cryptorchid 6

description: Total testicular tissue


title: HN-ras KO 8 hrs, biological rep2


title: H-ras KO 8 hrs, biological rep2

value: H-ras -/- KO


title: unilateral_cryptorchid 4

description: Total testicular tissue


title: unilateral_cryptorchid 1

description: Total testicular tissue


title: N-ras KO 8 hrs, biological rep1


title: unilateral_cryptorchid 7

description: Total testicular tissue


title: unilateral_cryptorchid 2

description: Total testicular tissue


title: N-ras KO 8 hrs, biological rep2


title: unilateral_cryptorchid 3

description: Total testicular tissue


title: H-ras KO 8 hrs, biological rep1


title: H-ras KO 8 hrs, biological rep3


title: Wild Type 1 hrs, biological rep4

value: induced for 1 hour with 20% FBS


title: testis 11-ketotestosterone implant 0.25mg 14days 6

city: Rennes

first: Florence

last: Le Gac

address: Campus de Beaulieu

department: Fish Reproduction Group

institute: Institut National de la Recherche Agronomique

hyb_protocol: Prehybridization of microarrays was performed in a hybridization buffer (5X Denhardt's, 5X SSC, 0.5% SDS) at 65°C for 4 hours. Labelled cDNA targets were denatured at 95°C for 5 minutes and incubated with microarrays for 48 hours at 65°C in the same buffer. Microarrays were then washed three times 1 hour at 68°C (0.1X SSC, 0.2% SDS).

scan_protocol: Microarrays were exposed 65 hours to phosphor-imaging plates that were scanned using a FUJI BAS 500 at 25 μm resolution and signals acquisition was performed using the BZscan software.

data_processing: Raw expression signals were first corrected for the amount of spotted cDNA by dividing complex signals by oligonucleotide signals. To avoid the bias affecting relative gene expression levels, corrected sample signal of each spot was further multiplied by the median vector signal of all arrays for this same spot. Expression values were then log2-transformed and submitted to a quantile-quantile normalisation.

organism: Oncorhynchus mykiss

source_name: total testis

label_protocol: 5µg RNAs were reverse-transcribed for 2 hours at 42°C in presence of radiolabelled dNTP (30 μCi [alpha-33P] dCTP, 120 μM dCTP, 20 mM each dATP, dTTP, dGTP) using an oligo(dT) primer and 400 units Superscript II reverse transcriptase (Invitrogen).

extract_protocol: Total RNA was extracted using TRIzol reagent (Invitrogen, Cergy Pontoise, France). Total RNA concentration was determined on an Agilent 2100 Bioanalyzer and quality-controlled on a RNA 6000 LabChip® kit (Agilent Technologies, Stockport, UK).

tag: gender

value: Testis

tag: hormonal treatment

value: 11-ketotestosterone supplementation by implant

tag: implant dose

tag: treatment period

value: 7 days


title: testis 11-ketotestosterone implant 0.25mg 14days 5

value: male


title: testis 11-ketotestosterone implant 0.25mg 14days 7


title: testis 11-ketotestosterone implant 0.25mg 14days 4


title: Wild Type 1 hrs, biological rep3


title: testis 11-ketotestosterone implant 0.25mg 14days 2


title: testis 11-ketotestosterone implant 0.25mg 14days 3


title: Wild Type 1 hrs, biological rep2


title: Wild Type 1 hrs, biological rep1


title: HN-ras KO 1 hrs, biological rep3


title: HN-ras KO 1 hrs, biological rep1


title: N-ras KO 1 hrs, biological rep1


title: N-ras KO 1 hrs, biological rep3


title: N-ras KO 1 hrs, biological rep2


title: testis testosterone implant 0.2mg 14days 2

value: Testosterone supplementation by implant

value: 14 days


title: H-ras KO 1 hrs, biological rep3


title: testis testosterone implant 0.2mg 14days 4


title: testis testosterone implant 0.2mg 14days 3


title: H-ras KO 1 hrs, biological rep2


title: HN-ras KO 1 hrs, biological rep2


title: testis testosterone implant 0.2mg 7days 3


title: testis testosterone implant 0.2mg 14days 5


title: testis testosterone implant 0.2mg 7days 2


title: testis 11-ketotestosterone implant 0.25mg 14days 1


title: testis testosterone implant 0.2mg 14days 1


title: testis testosterone implant 0.2mg 7days 4


title: testis testosterone implant 0.1mg 7days 4


title: testis testosterone implant 0.2mg 7days 1


title: Wild Type 0 hrs, biological rep4

value: after starvation


title: Wild Type 0 hrs, biological rep2


title: testis testosterone implant 0.1mg 7days 5


title: testis testosterone implant 0.1mg 7days 2


title: Wild Type 0 hrs, biological rep1


title: H-ras KO 1 hrs, biological rep1


title: Wild Type 0 hrs, biological rep3


title: testis testosterone implant 0.1mg 7days 3


title: N-ras KO 0 hrs, biological rep3


title: REF52neoTAg, bio rep 3

description: Genomics and Proteomics Core Laboratories (University of Pittsburgh)

hyb_protocol: Standard Affymetrix hybridization protocol done by a Core Facility

scan_protocol: Standard Affymetrix scan protocol done by a Core Facility

data_processing: Microarray Suite Version 5.0 (MAS 5.0) generated .CEL files were converted into RMA expression values using the BRB-Array Tools software (an Excel plug-in developed by Richard Simon at NCI - http://linus.nci.nih.gov/BRB-ArrayTools.html). Affymetrix Present/Absent calls and intensity values were calculated with MAS 5.0 using Affymetrix default analysis settings and global scaling with target signal = 500 as the normalization method.

molecule: polyA RNA

source_name: REF52neoTAg8, 2 day post-confluence

label_protocol: Standard Affymetrix labeling protocol done by a Core Facility

growth_protocol: MEM + 10% Fetal Bovine Serum + 400ug/ml G418 + Penn/Strep

extract_protocol: Total RNA was isolated using the Ultraspec II RNA reagent (Biotex). Poly-A+ RNA was isolated from the total RNA using the Oligotex kit (Qiagen).

treatment_protocol: Cells were grown to confluence and fed with fresh medium. After two days, cells were harvested with trypsin, washed 3X with PBS-EDTA and cell pellet was frozen until RNA isolation.

tag: REF52neo cells stably expressing SV40 Large T antigen gene (Clone 8)


title: testis Untreated 13


title: testis testosterone implant 0.1mg 7days 1


title: REF52neo, bio rep 1

description: Center for Applied Genomics (Newark, NJ)

source_name: REF52neo1, 2 day post-confluence

tag: REF52 cells stably expressing neo gene (Clone 1)


title: testis Untreated 14


title: testis Untreated 11


title: N-ras KO 0 hrs, biological rep2


title: HN-ras KO 0 hrs, biological rep2


title: HN-ras KO 0 hrs, biological rep3


title: N-ras KO 0 hrs, biological rep1


title: testis Untreated 12


title: HN-ras KO 0 hrs, biological rep1


title: REF52neoTAg, bio rep 2

source_name: REF52neoTAg3, 2 day post-confluence

tag: REF52neo cells stably expressing SV40 Large T antigen gene (Clone 3)


title: testis Untreated 9


title: testis Untreated 10


title: REF52neo, bio rep 2

source_name: REF52neo2, 2 day post-confluence

tag: REF52 cells stably expressing neo gene (Clone 2)


title: H-ras KO 0 hrs, biological rep1


title: REF52neoTAg, bio rep 1

source_name: REF52neoTAg2, 2 day post-confluence

tag: REF52neo cells stably expressing SV40 Large T antigen gene (Clone 2)


title: H-ras KO 0 hrs, biological rep3


title: testis Untreated 8

tag: tissue


title: H-ras KO 0 hrs, biological rep2

tag: cell type


title: testis Untreated 4


title: testis Untreated 2


title: testis Untreated 3


title: testis Untreated 5


title: testis Untreated 6


title: testis Untreated 7


title: testis Untreated 1


title: isolated Spermatid 3

scan_protocol: Microarrays were exposed 65 hours to phosphor-imaging plates that were scanned using a FUJI BAS 500 at 25 μm resolution. Signals acquisition was performed using the BZscan software.

data_processing: Raw expression signals were first corrected for the amount of spotted cDNA by dividing complex signals by oligonucleotide signals. To avoid the bias affecting relative gene expression levels, corrected sample signal of each spot was further multiplied by the median vector signal of all arrays for this same spot. Expression values (clones only) were then log2-transformed and submitted to a quantile-quantile normalisation.

source_name: fraction of isolated germ cells enriched in spermatids

value: Isolated germ cells

tag: stages

value: Spermatid


title: isolated Spermatocyte 6

source_name: fraction of isolated germ cells enriched in spermatocytes

value: Spermatocyte


title: Proteins from vacuoles of Cyanidioschyzon merolae strain 10D

type: protein

city: Nishiikebukuro

first: Fumi

last: Yagisawa

state: Tokyo

department: Research Information Center for Extremophiles

country: Japan

institute: Rikkyo (St. Paul's) University

description: Identification of proteins from vacuoles of red algae [Cyanidioschyzon merolae strain 10D (Eukaryota; Rhodophyta; Bangiophyceae; Cyanidiales; Cyanidiaceae)] synchronized at interphase, using MALDI-TOF.

data_processing: The samples were analyzed by peptide mass fingerprinting (PMF) using a mass spectrometer (AXIMA-TOF2; Shimadzu) in the reflectron mode. When samples could not be identified by PMF, several peptide peaks were further analyzed by post source decay (PSD)-MS/MS. Database searches were performed using the software program MASCOT v2.2.01 (Matrix Science) running on a local database built from the FASTA files of 5014 open reading frames in the C. merolae genome database (http://merolae.biol.s.u-tokyo.ac.jp/). The peptide tolerance was set to 0.1-0.2 Da. Cysteine carbamidomethylation (for samples prepared by Xcise) or propionamidation (for manually prepared samples) was included as a fixed modification and methionine oxidation was included as a variable modification. The identification threshold was set to p < 0.05. As a result, 46 proteins were identified.

molecule: protein

organism: Cyanidioschyzon merolae strain 10D

source_name: vacuoles

extract_protocol: The vacuoles of C. merolae synchronized at interphase were isolated by differential and iodixanol-gradient ultracentrifugation. The supernatant (5 ug of protein) were subjected to SDS-PAGE, cut into 69 slices without staining, and subjected to automatic sample preparation for MALDI-TOF-MS by a robot Xcise (Shimadzu). Alternatively, the vacuolar fraction protein (15.8 ug) was alkylated with 5% (w/v) acrylamide, subjected to SDS-PAGE, and stained with Imperial Protein Stain (Pierce). The gel slices of 58 visible bands were destained and digested as described previously (PMID: 11507753). After the digestion, the peptide fragments were extracted from the gel pieces with 5% (v/v) formic acid in 50% (v/v) CH3CN. Extracts were dried in a vacuum concentrator. The dried peptides were dissolved in 0.1% (v/v) trichloroacetic acid (TFA), desalted using uC18-Zip Tip microcolumns (Millipore) and spotted onto a 384-well plate (KRATOS Analytical). After completely drying the samples, 0.5% (w/v) alpha-cyano-4-hydroxycinnamic acid in 50% (v/v) CH3CN and 0.1% (v/v) TFA were spotted on the peptide spots and allowed to dry.

tag: organelle


title: isolated Spermatocyte 3


title: isolated Spermatid 1


title: isolated Spermatid 2


title: testis Stage_VIII 3

value: Stage VIII


title: isolated Spermatogonia 1

source_name: fraction of isolated germ cells enriched in spermatogonia

value: Spermatogonia


title: isolated Spermatocyte 2


title: isolated Spermatocyte 4


title: isolated Spermatogonia 3


title: isolated Spermatocyte 5


title: testis Stage_VIII 2


title: isolated Spermatogonia 4


title: isolated Spermatogonia 2


title: isolated Spermatogonia 6


title: testis Stage_V 4

value: Stage V


title: isolated Spermatogonia 5


title: testis Stage_VIII 1


title: testis Stage_V 3


title: testis Stage_V 1


title: testis Stage_IIIb 1

value: Stage IIIb


title: testis Stage_IIb 4

value: Stage IIb


title: testis Stage_V 2


title: testis Stage_IIIb 2


title: isolated Spermatocyte 1


title: testis Stage_IIIb 3


title: testis Stage_IIb 1


title: testis Stage_IIa 3

value: Stage IIa


title: testis Stage_IIb 2


title: testis Stage_IIa 4


title: testis Stage_I 4

value: Stage I


title: testis Stage_I 2

value: Testis


title: testis Stage_I 3


title: testis Stage_IIb 3


title: testis Stage_IIa 1


title: testis Stage_I 1


title: testis Stage_I 5


title: testis Stage_IIa 2


title: mouse45_vs_mixed_sex_pool: brain

status: Public on Aug 31 2009

city: Toronto

first: Tomas

last: Babak

state: ON

address: 112 College St

department: Banting and Best Department of Medical Research

country: Canada

institute: Best Institute

hyb_protocol: The hybridizations were performed to single arrays (individuals F2 samples labeled with Cy5 and reference pools labeled with Cy3 fluorochromes) for 24 h in a hybridization chamber, washed, and scanned using a confocal laser scanner. Arrays were quantified on the basis of spot intensity relative to background, adjusted for experimental variation between arrays using average intensity over multiple channels, and fitted to a previously described error model to determine significance21 (type I error)

scan_protocol: Standard dual-channel Agilent scanner with manufacturer provided software.

data_processing: See Rosetta Error Model (PMID: 16522673)

source_name: mouse45, brain

label_protocol: Three micrograms of total RNA was reverse transcribed and labeled with either Cy3 or Cy5 fluorochrome. Labeled complementary RNA (cRNA) from each F2 animal was hybridized against a cross-specific pool of labeled cRNAs constructed from equal aliquots of RNA from 150 F2 animals and parental mouse strains for each of the three tissues.

growth_protocol: All mice were maintained on a 12 h light–12 h dark cycle and fed ad libitum. Mice were fed Purina Chow until 10 wk of age, and then fed western diet (Teklad 88137, Harlan Teklad) for the subsequent 8 wk.

extract_protocol: Mouse tissues were homogenized, and total RNA extracted using Trizol reagent (Invitrogen) according to manufacturer's protocol.

treatment_protocol: Mice were fasted overnight before they were killed. Their tissues were collected, flash frozen in liquid nitrogen, and stored in −80 °C prior to RNA isolation.  All procedures of housing and treatment of animals were performed in accordance with Institutional Animal Care and Use Committee regulations.

tag: strain

value: CAST/EiJ x C57BL/6J

tag: treatment category

value: test sample

value: brain

tag: sex

source_name: reference pool (mixed sex, brain)

value: reference pool

value: mixed


title: mouse40_vs_mixed_sex_pool: brain

source_name: mouse40, brain

value: female


title: mouse44_vs_mixed_sex_pool: brain

source_name: mouse44, brain

value: male


title: mouse37_vs_mixed_sex_pool: brain

source_name: mouse37, brain


title: mouse34_vs_mixed_sex_pool: brain

source_name: mouse34, brain


title: mouse39_vs_mixed_sex_pool: brain

source_name: mouse39, brain


title: mouse47_vs_mixed_sex_pool: brain

source_name: mouse47, brain


title: mouse41_vs_mixed_sex_pool: brain

source_name: mouse41, brain


title: mouse36_vs_mixed_sex_pool: brain

source_name: mouse36, brain


title: mouse46_vs_mixed_sex_pool: brain

source_name: mouse46, brain


title: mouse38_vs_mixed_sex_pool: brain

source_name: mouse38, brain


title: mouse42_vs_mixed_sex_pool: brain

source_name: mouse42, brain


title: mouse33_vs_mixed_sex_pool: brain

source_name: mouse33, brain


title: mouse35_vs_mixed_sex_pool: brain

source_name: mouse35, brain


title: mouse43_vs_mixed_sex_pool: brain

source_name: mouse43, brain


title: mouse31_vs_mixed_sex_pool: brain

source_name: mouse31, brain


title: mouse30_vs_mixed_sex_pool: brain

source_name: mouse30, brain


title: mouse21_vs_mixed_sex_pool: brain

source_name: mouse21, brain

source_name: reference pool (mixed sex, brain)


title: mouse28_vs_mixed_sex_pool: brain

source_name: mouse28, brain


title: mouse32_vs_mixed_sex_pool: brain

source_name: mouse32, brain


title: mouse29_vs_mixed_sex_pool: brain

source_name: mouse29, brain


title: mouse25_vs_mixed_sex_pool: brain

source_name: mouse25, brain


title: mouse26_vs_mixed_sex_pool: brain

source_name: mouse26, brain


title: mouse27_vs_mixed_sex_pool: brain

source_name: mouse27, brain


title: mouse22_vs_mixed_sex_pool: brain

source_name: mouse22, brain


title: mouse23_vs_mixed_sex_pool: brain

source_name: mouse23, brain


title: mouse20_vs_mixed_sex_pool: brain

source_name: mouse20, brain


title: mouse15_vs_mixed_sex_pool: brain

source_name: mouse15, brain


title: mouse24_vs_mixed_sex_pool: brain

source_name: mouse24, brain


title: mouse19_vs_mixed_sex_pool: brain

source_name: mouse19, brain


title: mouse14_vs_mixed_sex_pool: brain

source_name: mouse14, brain


title: mouse6_vs_mixed_sex_pool: brain

source_name: mouse6, brain


title: mouse11_vs_mixed_sex_pool: brain

source_name: mouse11, brain


title: mouse16_vs_mixed_sex_pool: brain

source_name: mouse16, brain


title: mouse17_vs_mixed_sex_pool: brain

source_name: mouse17, brain

source_name: reference pool (mixed sex, brain)


title: mouse9_vs_mixed_sex_pool: brain

source_name: mouse9, brain


title: mouse10_vs_mixed_sex_pool: brain

source_name: mouse10, brain


title: mouse13_vs_mixed_sex_pool: brain

source_name: mouse13, brain


title: mouse12_vs_mixed_sex_pool: brain

source_name: mouse12, brain


title: mouse8_vs_mixed_sex_pool: brain

source_name: mouse8, brain


title: mouse18_vs_mixed_sex_pool: brain

source_name: mouse18, brain


title: mouse5_vs_mixed_sex_pool: brain

source_name: mouse5, brain


title: mouse1_vs_mixed_sex_pool: brain

source_name: mouse1, brain


title: mouse106_vs_mixed_sex_pool: liver

source_name: mouse106, liver

value: liver

source_name: reference pool (mixed sex, liver)


title: mouse2_vs_mixed_sex_pool: brain

source_name: mouse2, brain


title: mouse105_vs_mixed_sex_pool: liver

source_name: mouse105, liver


title: mouse4_vs_mixed_sex_pool: brain

source_name: mouse4, brain


title: mouse109_vs_mixed_sex_pool: liver

source_name: mouse109, liver


title: mouse114_vs_mixed_sex_pool: liver

source_name: mouse114, liver


title: mouse107_vs_mixed_sex_pool: liver

source_name: mouse107, liver


title: mouse113_vs_mixed_sex_pool: liver

source_name: mouse113, liver


title: mouse108_vs_mixed_sex_pool: liver

source_name: mouse108, liver


title: mouse3_vs_mixed_sex_pool: brain

source_name: mouse3, brain

source_name: reference pool (mixed sex, brain)


title: mouse110_vs_mixed_sex_pool: liver

source_name: mouse110, liver


title: mouse104_vs_mixed_sex_pool: liver

source_name: mouse104, liver


title: mouse112_vs_mixed_sex_pool: liver

source_name: mouse112, liver


title: mouse102_vs_mixed_sex_pool: liver

source_name: mouse102, liver


title: mouse101_vs_mixed_sex_pool: liver

source_name: mouse101, liver


title: mouse95_vs_mixed_sex_pool: liver

source_name: mouse95, liver


title: mouse99_vs_mixed_sex_pool: liver

source_name: mouse99, liver

source_name: reference pool (mixed sex, liver)


title: mouse98_vs_mixed_sex_pool: liver

source_name: mouse98, liver


title: mouse103_vs_mixed_sex_pool: liver

source_name: mouse103, liver


title: mouse94_vs_mixed_sex_pool: liver

source_name: mouse94, liver


title: mouse96_vs_mixed_sex_pool: liver

source_name: mouse96, liver


title: mouse100_vs_mixed_sex_pool: liver

source_name: mouse100, liver


title: mouse93_vs_mixed_sex_pool: liver

source_name: mouse93, liver


title: mouse97_vs_mixed_sex_pool: liver

source_name: mouse97, liver


title: mouse91_vs_mixed_sex_pool: liver

source_name: mouse91, liver


title: mouse92_vs_mixed_sex_pool: liver

source_name: mouse92, liver


title: mouse7_vs_mixed_sex_pool: brain

source_name: mouse7, brain

source_name: reference pool (mixed sex, brain)


title: mouse88_vs_mixed_sex_pool: liver

source_name: mouse88, liver


title: mouse89_vs_mixed_sex_pool: liver

source_name: mouse89, liver


title: mouse87_vs_mixed_sex_pool: liver

source_name: mouse87, liver


title: mouse86_vs_mixed_sex_pool: liver

source_name: mouse86, liver


title: mouse84_vs_mixed_sex_pool: liver

source_name: mouse84, liver


title: mouse85_vs_mixed_sex_pool: liver

source_name: mouse85, liver

source_name: reference pool (mixed sex, liver)


title: mouse82_vs_mixed_sex_pool: liver

source_name: mouse82, liver


title: mouse78_vs_mixed_sex_pool: liver

source_name: mouse78, liver


title: mouse111_vs_mixed_sex_pool: liver

source_name: mouse111, liver


title: mouse80_vs_mixed_sex_pool: liver

source_name: mouse80, liver


title: mouse79_vs_mixed_sex_pool: liver

source_name: mouse79, liver


title: mouse83_vs_mixed_sex_pool: liver

source_name: mouse83, liver


title: mouse115_vs_mixed_sex_pool: liver

source_name: mouse115, liver


title: mouse77_vs_mixed_sex_pool: liver

source_name: mouse77, liver


title: mouse74_vs_mixed_sex_pool: liver

source_name: mouse74, liver


title: mouse72_vs_mixed_sex_pool: liver

source_name: mouse72, liver


title: mouse73_vs_mixed_sex_pool: liver

source_name: mouse73, liver


title: mouse90_vs_mixed_sex_pool: liver

source_name: mouse90, liver


title: mouse71_vs_mixed_sex_pool: liver

source_name: mouse71, liver


title: mouse81_vs_mixed_sex_pool: liver

source_name: mouse81, liver


title: mouse68_vs_mixed_sex_pool: liver

source_name: mouse68, liver


title: mouse70_vs_mixed_sex_pool: liver

source_name: mouse70, liver


title: mouse75_vs_mixed_sex_pool: liver

source_name: mouse75, liver

source_name: reference pool (mixed sex, liver)


title: mouse65_vs_mixed_sex_pool: liver

source_name: mouse65, liver


title: mouse76_vs_mixed_sex_pool: liver

source_name: mouse76, liver


title: mouse69_vs_mixed_sex_pool: liver

source_name: mouse69, liver


title: mouse64_vs_mixed_sex_pool: liver

source_name: mouse64, liver


title: mouse61_vs_mixed_sex_pool: liver

source_name: mouse61, liver


title: mouse67_vs_mixed_sex_pool: liver

source_name: mouse67, liver


title: mouse62_vs_mixed_sex_pool: liver

source_name: mouse62, liver


title: mouse59_vs_mixed_sex_pool: liver

source_name: mouse59, liver


title: mouse60_vs_mixed_sex_pool: liver

source_name: mouse60, liver


title: mouse58_vs_mixed_sex_pool: liver

source_name: mouse58, liver


title: mouse53_vs_mixed_sex_pool: liver

source_name: mouse53, liver


title: mouse55_vs_mixed_sex_pool: liver

source_name: mouse55, liver


title: mouse52_vs_mixed_sex_pool: liver

source_name: mouse52, liver


title: mouse54_vs_mixed_sex_pool: liver

source_name: mouse54, liver


title: mouse50_vs_mixed_sex_pool: liver

source_name: mouse50, liver


title: mouse51_vs_mixed_sex_pool: liver

source_name: mouse51, liver


title: mouse56_vs_mixed_sex_pool: liver

source_name: mouse56, liver

source_name: reference pool (mixed sex, liver)


title: mouse57_vs_mixed_sex_pool: liver

source_name: mouse57, liver


title: mouse63_vs_mixed_sex_pool: liver

source_name: mouse63, liver


title: mouse44_vs_mixed_sex_pool: liver

source_name: mouse44, liver


title: mouse46_vs_mixed_sex_pool: liver

source_name: mouse46, liver


title: mouse43_vs_mixed_sex_pool: liver

source_name: mouse43, liver


title: mouse45_vs_mixed_sex_pool: liver

source_name: mouse45, liver


title: mouse40_vs_mixed_sex_pool: liver

source_name: mouse40, liver


title: mouse49_vs_mixed_sex_pool: liver

source_name: mouse49, liver


title: mouse47_vs_mixed_sex_pool: liver

source_name: mouse47, liver


title: mouse35_vs_mixed_sex_pool: liver

source_name: mouse35, liver


title: mouse41_vs_mixed_sex_pool: liver

source_name: mouse41, liver


title: mouse37_vs_mixed_sex_pool: liver

source_name: mouse37, liver


title: mouse30_vs_mixed_sex_pool: liver

source_name: mouse30, liver


title: mouse36_vs_mixed_sex_pool: liver

source_name: mouse36, liver


title: mouse34_vs_mixed_sex_pool: liver

source_name: mouse34, liver


title: mouse48_vs_mixed_sex_pool: liver

source_name: mouse48, liver


title: mouse42_vs_mixed_sex_pool: liver

source_name: mouse42, liver

source_name: reference pool (mixed sex, liver)


title: mouse31_vs_mixed_sex_pool: liver

source_name: mouse31, liver


title: mouse39_vs_mixed_sex_pool: liver

source_name: mouse39, liver


title: mouse33_vs_mixed_sex_pool: liver

source_name: mouse33, liver


title: mouse28_vs_mixed_sex_pool: liver

source_name: mouse28, liver


title: mouse24_vs_mixed_sex_pool: liver

source_name: mouse24, liver


title: mouse29_vs_mixed_sex_pool: liver

source_name: mouse29, liver


title: mouse25_vs_mixed_sex_pool: liver

source_name: mouse25, liver


title: mouse21_vs_mixed_sex_pool: liver

source_name: mouse21, liver


title: mouse23_vs_mixed_sex_pool: liver

source_name: mouse23, liver


title: mouse38_vs_mixed_sex_pool: liver

source_name: mouse38, liver


title: mouse22_vs_mixed_sex_pool: liver

source_name: mouse22, liver


title: mouse32_vs_mixed_sex_pool: liver

source_name: mouse32, liver


title: mouse27_vs_mixed_sex_pool: liver

source_name: mouse27, liver


title: mouse66_vs_mixed_sex_pool: liver

source_name: mouse66, liver


title: mouse20_vs_mixed_sex_pool: liver

source_name: mouse20, liver


title: mouse13_vs_mixed_sex_pool: liver

source_name: mouse13, liver


title: mouse14_vs_mixed_sex_pool: liver

source_name: mouse14, liver

source_name: reference pool (mixed sex, liver)


title: mouse16_vs_mixed_sex_pool: liver

source_name: mouse16, liver


title: mouse26_vs_mixed_sex_pool: liver

source_name: mouse26, liver


title: mouse18_vs_mixed_sex_pool: liver

source_name: mouse18, liver


title: mouse19_vs_mixed_sex_pool: liver

source_name: mouse19, liver


title: mouse177_vs_female_pool: brain

source_name: mouse177, brain

source_name: reference pool (female, brain)


title: mouse12_vs_mixed_sex_pool: liver

source_name: mouse12, liver


title: mouse17_vs_mixed_sex_pool: liver

source_name: mouse17, liver


title: mouse176_vs_female_pool: brain

source_name: mouse176, brain


title: mouse178_vs_female_pool: brain

source_name: mouse178, brain


title: mouse179_vs_female_pool: brain

source_name: mouse179, brain


title: mouse175_vs_female_pool: brain

source_name: mouse175, brain


title: mouse15_vs_mixed_sex_pool: liver

source_name: mouse15, liver


title: mouse174_vs_female_pool: brain

source_name: mouse174, brain


title: mouse180_vs_female_pool: brain

source_name: mouse180, brain


title: mouse8_vs_mixed_sex_pool: liver

source_name: mouse8, liver


title: mouse9_vs_mixed_sex_pool: liver

source_name: mouse9, liver

source_name: reference pool (mixed sex, liver)


title: mouse1_vs_mixed_sex_pool: liver

source_name: mouse1, liver


title: mouse4_vs_mixed_sex_pool: liver

source_name: mouse4, liver


title: mouse173_vs_female_pool: brain

source_name: mouse173, brain


title: mouse3_vs_mixed_sex_pool: liver

source_name: mouse3, liver


title: mouse11_vs_mixed_sex_pool: liver

source_name: mouse11, liver


title: mouse172_vs_female_pool: brain

source_name: mouse172, brain

source_name: reference pool (female, brain)


title: mouse171_vs_female_pool: brain

source_name: mouse171, brain


title: mouse5_vs_mixed_sex_pool: liver

source_name: mouse5, liver


title: mouse10_vs_mixed_sex_pool: liver

source_name: mouse10, liver


title: mouse6_vs_mixed_sex_pool: liver

source_name: mouse6, liver


title: mouse169_vs_female_pool: brain

source_name: mouse169, brain


title: mouse170_vs_female_pool: brain

source_name: mouse170, brain


title: mouse7_vs_mixed_sex_pool: liver

source_name: mouse7, liver


title: mouse2_vs_mixed_sex_pool: liver

source_name: mouse2, liver


title: mouse166_vs_female_pool: brain

source_name: mouse166, brain


title: mouse165_vs_female_pool: brain

source_name: mouse165, brain


title: mouse167_vs_female_pool: brain

source_name: mouse167, brain


title: mouse168_vs_female_pool: brain

source_name: mouse168, brain


title: mouse164_vs_female_pool: brain

source_name: mouse164, brain


title: mouse153_vs_female_pool: brain

source_name: mouse153, brain


title: mouse158_vs_female_pool: brain

source_name: mouse158, brain


title: mouse159_vs_female_pool: brain

source_name: mouse159, brain


title: mouse161_vs_female_pool: brain

source_name: mouse161, brain

source_name: reference pool (female, brain)


title: mouse157_vs_female_pool: brain

source_name: mouse157, brain


title: mouse160_vs_female_pool: brain

source_name: mouse160, brain


title: mouse162_vs_female_pool: brain

source_name: mouse162, brain


title: mouse148_vs_female_pool: brain

source_name: mouse148, brain


title: mouse163_vs_female_pool: brain

source_name: mouse163, brain


title: mouse149_vs_female_pool: brain

source_name: mouse149, brain


title: mouse150_vs_female_pool: brain

source_name: mouse150, brain


title: mouse156_vs_female_pool: brain

source_name: mouse156, brain


title: mouse144_vs_female_pool: brain

source_name: mouse144, brain


title: mouse152_vs_female_pool: brain

source_name: mouse152, brain


title: mouse154_vs_female_pool: brain

source_name: mouse154, brain


title: mouse151_vs_female_pool: brain

source_name: mouse151, brain


title: mouse142_vs_female_pool: brain

source_name: mouse142, brain


title: mouse143_vs_female_pool: brain

source_name: mouse143, brain


title: mouse147_vs_female_pool: brain

source_name: mouse147, brain


title: mouse146_vs_female_pool: brain

source_name: mouse146, brain


title: mouse141_vs_female_pool: brain

source_name: mouse141, brain

source_name: reference pool (female, brain)


title: mouse145_vs_female_pool: brain

source_name: mouse145, brain


title: mouse140_vs_female_pool: brain

source_name: mouse140, brain


title: mouse138_vs_female_pool: brain

source_name: mouse138, brain


title: mouse139_vs_female_pool: brain

source_name: mouse139, brain


title: mouse137_vs_female_pool: brain

source_name: mouse137, brain


title: mouse132_vs_female_pool: brain

source_name: mouse132, brain


title: mouse129_vs_female_pool: brain

source_name: mouse129, brain


title: mouse155_vs_female_pool: brain

source_name: mouse155, brain


title: mouse127_vs_female_pool: brain

source_name: mouse127, brain


title: mouse120_vs_female_pool: brain

source_name: mouse120, brain


title: mouse122_vs_female_pool: brain

source_name: mouse122, brain


title: mouse134_vs_female_pool: brain

source_name: mouse134, brain


title: mouse136_vs_female_pool: brain

source_name: mouse136, brain


title: mouse125_vs_female_pool: brain

source_name: mouse125, brain


title: mouse131_vs_female_pool: brain

source_name: mouse131, brain


title: mouse118_vs_female_pool: brain

source_name: mouse118, brain


title: mouse135_vs_female_pool: brain

source_name: mouse135, brain

source_name: reference pool (female, brain)


title: mouse133_vs_female_pool: brain

source_name: mouse133, brain


title: mouse130_vs_female_pool: brain

source_name: mouse130, brain


title: mouse123_vs_female_pool: brain

source_name: mouse123, brain


title: mouse121_vs_female_pool: brain

source_name: mouse121, brain


title: mouse128_vs_female_pool: brain

source_name: mouse128, brain


title: mouse124_vs_female_pool: brain

source_name: mouse124, brain


title: mouse119_vs_female_pool: brain

source_name: mouse119, brain


title: mouse117_vs_female_pool: brain

source_name: mouse117, brain


title: mouse126_vs_female_pool: brain

source_name: mouse126, brain


title: mouse116_vs_female_pool: brain

source_name: mouse116, brain


title: mouse321_vs_female_pool: liver

source_name: mouse321, liver

source_name: reference pool (female, liver)


title: mouse320_vs_female_pool: liver

source_name: mouse320, liver


title: mouse319_vs_female_pool: liver

source_name: mouse319, liver


title: mouse317_vs_female_pool: liver

source_name: mouse317, liver


title: mouse316_vs_female_pool: liver

source_name: mouse316, liver


title: mouse313_vs_female_pool: liver

source_name: mouse313, liver


title: mouse315_vs_female_pool: liver

source_name: mouse315, liver


title: mouse307_vs_female_pool: liver

source_name: mouse307, liver


title: mouse310_vs_female_pool: liver

source_name: mouse310, liver


title: mouse305_vs_female_pool: liver

source_name: mouse305, liver


title: mouse314_vs_female_pool: liver

source_name: mouse314, liver


title: mouse304_vs_female_pool: liver

source_name: mouse304, liver


title: mouse300_vs_female_pool: liver

source_name: mouse300, liver


title: mouse312_vs_female_pool: liver

source_name: mouse312, liver


title: mouse309_vs_female_pool: liver

source_name: mouse309, liver


title: mouse297_vs_female_pool: liver

source_name: mouse297, liver


title: mouse299_vs_female_pool: liver

source_name: mouse299, liver


title: mouse296_vs_female_pool: liver

source_name: mouse296, liver

source_name: reference pool (female, liver)


title: mouse301_vs_female_pool: liver

source_name: mouse301, liver


title: mouse294_vs_female_pool: liver

source_name: mouse294, liver


title: mouse292_vs_female_pool: liver

source_name: mouse292, liver


title: mouse306_vs_female_pool: liver

source_name: mouse306, liver


title: mouse308_vs_female_pool: liver

source_name: mouse308, liver


title: mouse303_vs_female_pool: liver

source_name: mouse303, liver


title: mouse295_vs_female_pool: liver

source_name: mouse295, liver


title: mouse311_vs_female_pool: liver

source_name: mouse311, liver


title: mouse302_vs_female_pool: liver

source_name: mouse302, liver


title: mouse289_vs_female_pool: liver

source_name: mouse289, liver


title: mouse291_vs_female_pool: liver

source_name: mouse291, liver


title: mouse290_vs_female_pool: liver

source_name: mouse290, liver


title: mouse298_vs_female_pool: liver

source_name: mouse298, liver


title: mouse293_vs_female_pool: liver

source_name: mouse293, liver


title: mouse287_vs_female_pool: liver

source_name: mouse287, liver


title: mouse288_vs_female_pool: liver

source_name: mouse288, liver


title: mouse286_vs_female_pool: liver

source_name: mouse286, liver

source_name: reference pool (female, liver)


title: mouse284_vs_female_pool: liver

source_name: mouse284, liver


title: mouse285_vs_female_pool: liver

source_name: mouse285, liver


title: mouse280_vs_female_pool: liver

source_name: mouse280, liver


title: mouse283_vs_female_pool: liver

source_name: mouse283, liver


title: mouse281_vs_female_pool: liver

source_name: mouse281, liver


title: mouse275_vs_female_pool: liver

source_name: mouse275, liver


title: mouse276_vs_female_pool: liver

source_name: mouse276, liver


title: mouse279_vs_female_pool: liver

source_name: mouse279, liver


title: mouse271_vs_female_pool: liver

source_name: mouse271, liver


title: mouse274_vs_female_pool: liver

source_name: mouse274, liver


title: mouse270_vs_female_pool: liver

source_name: mouse270, liver


title: mouse278_vs_female_pool: liver

source_name: mouse278, liver


title: mouse277_vs_female_pool: liver

source_name: mouse277, liver


title: mouse272_vs_female_pool: liver

source_name: mouse272, liver


title: mouse273_vs_female_pool: liver

source_name: mouse273, liver


title: mouse266_vs_female_pool: liver

source_name: mouse266, liver


title: mouse267_vs_female_pool: liver

source_name: mouse267, liver

source_name: reference pool (female, liver)


title: mouse265_vs_female_pool: liver

source_name: mouse265, liver


title: mouse262_vs_female_pool: liver

source_name: mouse262, liver


title: mouse263_vs_female_pool: liver

source_name: mouse263, liver


title: mouse268_vs_female_pool: liver

source_name: mouse268, liver


title: mouse269_vs_female_pool: liver

source_name: mouse269, liver


title: mouse261_vs_female_pool: liver

source_name: mouse261, liver


title: mouse264_vs_female_pool: liver

source_name: mouse264, liver


title: mouse260_vs_female_pool: liver

source_name: mouse260, liver


title: mouse256_vs_female_pool: liver

source_name: mouse256, liver


title: mouse258_vs_female_pool: liver

source_name: mouse258, liver


title: mouse282_vs_female_pool: liver

source_name: mouse282, liver


title: mouse259_vs_female_pool: liver

source_name: mouse259, liver


title: mouse249_vs_female_pool: liver

source_name: mouse249, liver


title: mouse257_vs_female_pool: liver

source_name: mouse257, liver


title: mouse252_vs_female_pool: liver

source_name: mouse252, liver


title: mouse251_vs_female_pool: liver

source_name: mouse251, liver


title: mouse253_vs_female_pool: liver

source_name: mouse253, liver

source_name: reference pool (female, liver)


title: mouse255_vs_female_pool: liver

source_name: mouse255, liver


title: mouse254_vs_female_pool: liver

source_name: mouse254, liver


title: mouse243_vs_female_pool: liver

source_name: mouse243, liver


title: mouse250_vs_female_pool: liver

source_name: mouse250, liver


title: mouse246_vs_female_pool: liver

source_name: mouse246, liver


title: mouse239_vs_female_pool: liver

source_name: mouse239, liver


title: mouse248_vs_female_pool: liver

source_name: mouse248, liver


title: mouse235_vs_female_pool: liver

source_name: mouse235, liver


title: mouse245_vs_female_pool: liver

source_name: mouse245, liver


title: mouse241_vs_female_pool: liver

source_name: mouse241, liver


title: mouse240_vs_female_pool: liver

source_name: mouse240, liver


title: mouse238_vs_female_pool: liver

source_name: mouse238, liver


title: mouse244_vs_female_pool: liver

source_name: mouse244, liver


title: mouse237_vs_female_pool: liver

source_name: mouse237, liver


title: mouse242_vs_female_pool: liver

source_name: mouse242, liver


title: mouse236_vs_female_pool: liver

source_name: mouse236, liver


title: mouse247_vs_female_pool: liver

source_name: mouse247, liver

source_name: reference pool (female, liver)


title: mouse233_vs_female_pool: liver

source_name: mouse233, liver


title: mouse232_vs_female_pool: liver

source_name: mouse232, liver


title: mouse234_vs_female_pool: liver

source_name: mouse234, liver


title: mouse227_vs_female_pool: liver

source_name: mouse227, liver


title: mouse231_vs_female_pool: liver

source_name: mouse231, liver


title: mouse230_vs_female_pool: liver

source_name: mouse230, liver


title: mouse226_vs_female_pool: liver

source_name: mouse226, liver


title: mouse225_vs_female_pool: liver

source_name: mouse225, liver


title: mouse224_vs_female_pool: liver

source_name: mouse224, liver


title: mouse229_vs_female_pool: liver

source_name: mouse229, liver


title: mouse228_vs_female_pool: liver

source_name: mouse228, liver


title: mouse223_vs_female_pool: liver

source_name: mouse223, liver


title: mouse221_vs_female_pool: liver

source_name: mouse221, liver


title: mouse217_vs_female_pool: liver

source_name: mouse217, liver


title: mouse209_vs_female_pool: liver

source_name: mouse209, liver


title: mouse216_vs_female_pool: liver

source_name: mouse216, liver


title: mouse219_vs_female_pool: liver

source_name: mouse219, liver

source_name: reference pool (female, liver)


title: mouse218_vs_female_pool: liver

source_name: mouse218, liver


title: mouse208_vs_female_pool: liver

source_name: mouse208, liver


title: mouse207_vs_female_pool: liver

source_name: mouse207, liver


title: mouse213_vs_female_pool: liver

source_name: mouse213, liver


title: mouse204_vs_female_pool: liver

source_name: mouse204, liver


title: mouse214_vs_female_pool: liver

source_name: mouse214, liver


title: mouse210_vs_female_pool: liver

source_name: mouse210, liver


title: mouse212_vs_female_pool: liver

source_name: mouse212, liver


title: mouse220_vs_female_pool: liver

source_name: mouse220, liver


title: mouse222_vs_female_pool: liver

source_name: mouse222, liver


title: mouse205_vs_female_pool: liver

source_name: mouse205, liver


title: mouse196_vs_female_pool: liver

source_name: mouse196, liver


title: mouse202_vs_female_pool: liver

source_name: mouse202, liver


title: mouse200_vs_female_pool: liver

source_name: mouse200, liver


title: mouse198_vs_female_pool: liver

source_name: mouse198, liver


title: mouse203_vs_female_pool: liver

source_name: mouse203, liver


title: mouse206_vs_female_pool: liver

source_name: mouse206, liver

source_name: reference pool (female, liver)


title: mouse195_vs_female_pool: liver

source_name: mouse195, liver


title: mouse201_vs_female_pool: liver

source_name: mouse201, liver


title: mouse199_vs_female_pool: liver

source_name: mouse199, liver


title: mouse193_vs_female_pool: liver

source_name: mouse193, liver


title: mouse189_vs_female_pool: liver

source_name: mouse189, liver


title: mouse197_vs_female_pool: liver

source_name: mouse197, liver


title: mouse191_vs_female_pool: liver

source_name: mouse191, liver


title: mouse188_vs_female_pool: liver

source_name: mouse188, liver


title: mouse186_vs_female_pool: liver

source_name: mouse186, liver


title: mouse190_vs_female_pool: liver

source_name: mouse190, liver


title: mouse192_vs_female_pool: liver

source_name: mouse192, liver


title: mouse194_vs_female_pool: liver

source_name: mouse194, liver


title: mouse178_vs_female_pool: liver

source_name: mouse178, liver


title: mouse176_vs_female_pool: liver

source_name: mouse176, liver


title: mouse183_vs_female_pool: liver

source_name: mouse183, liver


title: mouse184_vs_female_pool: liver

source_name: mouse184, liver


title: mouse182_vs_female_pool: liver

source_name: mouse182, liver

source_name: reference pool (female, liver)


title: mouse187_vs_female_pool: liver

source_name: mouse187, liver


title: mouse185_vs_female_pool: liver

source_name: mouse185, liver


title: mouse181_vs_female_pool: liver

source_name: mouse181, liver


title: mouse177_vs_female_pool: liver

source_name: mouse177, liver


title: mouse179_vs_female_pool: liver

source_name: mouse179, liver


title: mouse180_vs_female_pool: liver

source_name: mouse180, liver


title: mouse175_vs_female_pool: liver

source_name: mouse175, liver


title: mouse173_vs_female_pool: liver

source_name: mouse173, liver


title: mouse171_vs_female_pool: liver

source_name: mouse171, liver


title: mouse167_vs_female_pool: liver

source_name: mouse167, liver


title: mouse164_vs_female_pool: liver

source_name: mouse164, liver


title: mouse162_vs_female_pool: liver

source_name: mouse162, liver


title: mouse168_vs_female_pool: liver

source_name: mouse168, liver


title: mouse165_vs_female_pool: liver

source_name: mouse165, liver


title: mouse169_vs_female_pool: liver

source_name: mouse169, liver


title: mouse166_vs_female_pool: liver

source_name: mouse166, liver


title: mouse174_vs_female_pool: liver

source_name: mouse174, liver

source_name: reference pool (female, liver)


title: mouse163_vs_female_pool: liver

source_name: mouse163, liver


title: mouse172_vs_female_pool: liver

source_name: mouse172, liver


title: mouse158_vs_female_pool: liver

source_name: mouse158, liver


title: mouse170_vs_female_pool: liver

source_name: mouse170, liver


title: mouse160_vs_female_pool: liver

source_name: mouse160, liver


title: mouse157_vs_female_pool: liver

source_name: mouse157, liver


title: mouse159_vs_female_pool: liver

source_name: mouse159, liver


title: mouse153_vs_female_pool: liver

source_name: mouse153, liver


title: mouse156_vs_female_pool: liver

source_name: mouse156, liver


title: mouse155_vs_female_pool: liver

source_name: mouse155, liver


title: mouse154_vs_female_pool: liver

source_name: mouse154, liver


title: mouse161_vs_female_pool: liver

source_name: mouse161, liver


title: mouse150_vs_female_pool: liver

source_name: mouse150, liver


title: mouse151_vs_female_pool: liver

source_name: mouse151, liver


title: mouse148_vs_female_pool: liver

source_name: mouse148, liver


title: mouse146_vs_female_pool: liver

source_name: mouse146, liver


title: mouse144_vs_female_pool: liver

source_name: mouse144, liver

source_name: reference pool (female, liver)


title: mouse143_vs_female_pool: liver

source_name: mouse143, liver


title: mouse140_vs_female_pool: liver

source_name: mouse140, liver


title: mouse142_vs_female_pool: liver

source_name: mouse142, liver


title: mouse145_vs_female_pool: liver

source_name: mouse145, liver


title: mouse139_vs_female_pool: liver

source_name: mouse139, liver


title: mouse138_vs_female_pool: liver

source_name: mouse138, liver


title: mouse149_vs_female_pool: liver

source_name: mouse149, liver


title: mouse211_vs_female_pool: liver

source_name: mouse211, liver


title: mouse141_vs_female_pool: liver

source_name: mouse141, liver


title: mouse137_vs_female_pool: liver

source_name: mouse137, liver


title: mouse147_vs_female_pool: liver

source_name: mouse147, liver


title: mouse152_vs_female_pool: liver

source_name: mouse152, liver


title: mouse132_vs_female_pool: liver

source_name: mouse132, liver


title: mouse133_vs_female_pool: liver

source_name: mouse133, liver


title: mouse126_vs_female_pool: liver

source_name: mouse126, liver


title: mouse127_vs_female_pool: liver

source_name: mouse127, liver


title: mouse130_vs_female_pool: liver

source_name: mouse130, liver

source_name: reference pool (female, liver)


title: mouse136_vs_female_pool: liver

source_name: mouse136, liver


title: mouse134_vs_female_pool: liver

source_name: mouse134, liver


title: mouse128_vs_female_pool: liver

source_name: mouse128, liver


title: mouse125_vs_female_pool: liver

source_name: mouse125, liver


title: mouse129_vs_female_pool: liver

source_name: mouse129, liver


title: mouse131_vs_female_pool: liver

source_name: mouse131, liver


title: mouse122_vs_female_pool: liver

source_name: mouse122, liver


title: mouse135_vs_female_pool: liver

source_name: mouse135, liver


title: mouse123_vs_female_pool: liver

source_name: mouse123, liver


title: mouse117_vs_female_pool: liver

source_name: mouse117, liver


title: mouse115_vs_mixed_sex_pool: muscle

source_name: mouse115, muscle

value: muscle

source_name: reference pool (mixed sex, muscle)


title: mouse116_vs_female_pool: liver

source_name: mouse116, liver


title: mouse120_vs_female_pool: liver

source_name: mouse120, liver


title: mouse118_vs_female_pool: liver

source_name: mouse118, liver


title: mouse119_vs_female_pool: liver

source_name: mouse119, liver


title: mouse124_vs_female_pool: liver

source_name: mouse124, liver

source_name: reference pool (female, liver)


title: mouse112_vs_mixed_sex_pool: muscle

source_name: mouse112, muscle


title: mouse110_vs_mixed_sex_pool: muscle

source_name: mouse110, muscle


title: mouse114_vs_mixed_sex_pool: muscle

source_name: mouse114, muscle


title: mouse111_vs_mixed_sex_pool: muscle

source_name: mouse111, muscle


title: mouse108_vs_mixed_sex_pool: muscle

source_name: mouse108, muscle


title: mouse109_vs_mixed_sex_pool: muscle

source_name: mouse109, muscle


title: mouse105_vs_mixed_sex_pool: muscle

source_name: mouse105, muscle


title: mouse107_vs_mixed_sex_pool: muscle

source_name: mouse107, muscle


title: mouse106_vs_mixed_sex_pool: muscle

source_name: mouse106, muscle


title: mouse121_vs_female_pool: liver

source_name: mouse121, liver


title: mouse100_vs_mixed_sex_pool: muscle

source_name: mouse100, muscle

source_name: reference pool (mixed sex, muscle)


title: mouse103_vs_mixed_sex_pool: muscle

source_name: mouse103, muscle


title: mouse113_vs_mixed_sex_pool: muscle

source_name: mouse113, muscle


title: mouse102_vs_mixed_sex_pool: muscle

source_name: mouse102, muscle


title: mouse95_vs_mixed_sex_pool: muscle

source_name: mouse95, muscle


title: mouse101_vs_mixed_sex_pool: muscle

source_name: mouse101, muscle


title: mouse90_vs_mixed_sex_pool: muscle

source_name: mouse90, muscle


title: mouse85_vs_mixed_sex_pool: muscle

source_name: mouse85, muscle


title: mouse96_vs_mixed_sex_pool: muscle

source_name: mouse96, muscle


title: mouse80_vs_mixed_sex_pool: muscle

source_name: mouse80, muscle


title: mouse97_vs_mixed_sex_pool: muscle

source_name: mouse97, muscle


title: mouse81_vs_mixed_sex_pool: muscle

source_name: mouse81, muscle


title: mouse77_vs_mixed_sex_pool: muscle

source_name: mouse77, muscle


title: mouse99_vs_mixed_sex_pool: muscle

source_name: mouse99, muscle


title: mouse86_vs_mixed_sex_pool: muscle

source_name: mouse86, muscle


title: mouse87_vs_mixed_sex_pool: muscle

source_name: mouse87, muscle


title: mouse91_vs_mixed_sex_pool: muscle

source_name: mouse91, muscle


title: mouse89_vs_mixed_sex_pool: muscle

source_name: mouse89, muscle

source_name: reference pool (mixed sex, muscle)


title: mouse104_vs_mixed_sex_pool: muscle

source_name: mouse104, muscle


title: mouse76_vs_mixed_sex_pool: muscle

source_name: mouse76, muscle


title: mouse82_vs_mixed_sex_pool: muscle

source_name: mouse82, muscle


title: mouse92_vs_mixed_sex_pool: muscle

source_name: mouse92, muscle


title: mouse94_vs_mixed_sex_pool: muscle

source_name: mouse94, muscle


title: mouse75_vs_mixed_sex_pool: muscle

source_name: mouse75, muscle


title: mouse74_vs_mixed_sex_pool: muscle

source_name: mouse74, muscle


title: mouse79_vs_mixed_sex_pool: muscle

source_name: mouse79, muscle


title: mouse84_vs_mixed_sex_pool: muscle

source_name: mouse84, muscle


title: mouse93_vs_mixed_sex_pool: muscle

source_name: mouse93, muscle


title: mouse83_vs_mixed_sex_pool: muscle

source_name: mouse83, muscle


title: mouse88_vs_mixed_sex_pool: muscle

source_name: mouse88, muscle


title: mouse98_vs_mixed_sex_pool: muscle

source_name: mouse98, muscle


title: mouse78_vs_mixed_sex_pool: muscle

source_name: mouse78, muscle


title: mouse73_vs_mixed_sex_pool: muscle

source_name: mouse73, muscle


title: mouse72_vs_mixed_sex_pool: muscle

source_name: mouse72, muscle


title: mouse70_vs_mixed_sex_pool: muscle

source_name: mouse70, muscle

source_name: reference pool (mixed sex, muscle)


title: mouse63_vs_mixed_sex_pool: muscle

source_name: mouse63, muscle


title: mouse60_vs_mixed_sex_pool: muscle

source_name: mouse60, muscle


title: mouse61_vs_mixed_sex_pool: muscle

source_name: mouse61, muscle


title: mouse71_vs_mixed_sex_pool: muscle

source_name: mouse71, muscle


title: mouse67_vs_mixed_sex_pool: muscle

source_name: mouse67, muscle


title: mouse65_vs_mixed_sex_pool: muscle

source_name: mouse65, muscle


title: mouse68_vs_mixed_sex_pool: muscle

source_name: mouse68, muscle


title: mouse62_vs_mixed_sex_pool: muscle

source_name: mouse62, muscle


title: mouse64_vs_mixed_sex_pool: muscle

source_name: mouse64, muscle


title: mouse66_vs_mixed_sex_pool: muscle

source_name: mouse66, muscle


title: mouse52_vs_mixed_sex_pool: muscle

source_name: mouse52, muscle


title: mouse69_vs_mixed_sex_pool: muscle

source_name: mouse69, muscle


title: mouse51_vs_mixed_sex_pool: muscle

source_name: mouse51, muscle


title: mouse56_vs_mixed_sex_pool: muscle

source_name: mouse56, muscle


title: mouse59_vs_mixed_sex_pool: muscle

source_name: mouse59, muscle


title: mouse57_vs_mixed_sex_pool: muscle

source_name: mouse57, muscle


title: mouse55_vs_mixed_sex_pool: muscle

source_name: mouse55, muscle

source_name: reference pool (mixed sex, muscle)


title: mouse53_vs_mixed_sex_pool: muscle

source_name: mouse53, muscle


title: mouse49_vs_mixed_sex_pool: muscle

source_name: mouse49, muscle


title: mouse47_vs_mixed_sex_pool: muscle

source_name: mouse47, muscle


title: mouse54_vs_mixed_sex_pool: muscle

source_name: mouse54, muscle


title: mouse58_vs_mixed_sex_pool: muscle

source_name: mouse58, muscle


title: mouse50_vs_mixed_sex_pool: muscle

source_name: mouse50, muscle


title: mouse48_vs_mixed_sex_pool: muscle

source_name: mouse48, muscle


title: mouse46_vs_mixed_sex_pool: muscle

source_name: mouse46, muscle


title: mouse44_vs_mixed_sex_pool: muscle

source_name: mouse44, muscle


title: mouse45_vs_mixed_sex_pool: muscle

source_name: mouse45, muscle


title: mouse42_vs_mixed_sex_pool: muscle

source_name: mouse42, muscle


title: mouse40_vs_mixed_sex_pool: muscle

source_name: mouse40, muscle


title: mouse43_vs_mixed_sex_pool: muscle

source_name: mouse43, muscle


title: mouse36_vs_mixed_sex_pool: muscle

source_name: mouse36, muscle


title: mouse38_vs_mixed_sex_pool: muscle

source_name: mouse38, muscle


title: mouse41_vs_mixed_sex_pool: muscle

source_name: mouse41, muscle


title: mouse39_vs_mixed_sex_pool: muscle

source_name: mouse39, muscle

source_name: reference pool (mixed sex, muscle)


title: mouse37_vs_mixed_sex_pool: muscle

source_name: mouse37, muscle


title: mouse33_vs_mixed_sex_pool: muscle

source_name: mouse33, muscle


title: mouse26_vs_mixed_sex_pool: muscle

source_name: mouse26, muscle


title: mouse34_vs_mixed_sex_pool: muscle

source_name: mouse34, muscle


title: mouse28_vs_mixed_sex_pool: muscle

source_name: mouse28, muscle


title: mouse25_vs_mixed_sex_pool: muscle

source_name: mouse25, muscle


title: mouse35_vs_mixed_sex_pool: muscle

source_name: mouse35, muscle


title: mouse22_vs_mixed_sex_pool: muscle

source_name: mouse22, muscle


title: mouse24_vs_mixed_sex_pool: muscle

source_name: mouse24, muscle


title: mouse30_vs_mixed_sex_pool: muscle

source_name: mouse30, muscle


title: mouse29_vs_mixed_sex_pool: muscle

source_name: mouse29, muscle


title: mouse32_vs_mixed_sex_pool: muscle

source_name: mouse32, muscle


title: mouse20_vs_mixed_sex_pool: muscle

source_name: mouse20, muscle


title: mouse31_vs_mixed_sex_pool: muscle

source_name: mouse31, muscle


title: mouse27_vs_mixed_sex_pool: muscle

source_name: mouse27, muscle


title: mouse21_vs_mixed_sex_pool: muscle

source_name: mouse21, muscle


title: mouse23_vs_mixed_sex_pool: muscle

source_name: mouse23, muscle

source_name: reference pool (mixed sex, muscle)


title: mouse19_vs_mixed_sex_pool: muscle

source_name: mouse19, muscle


title: mouse15_vs_mixed_sex_pool: muscle

source_name: mouse15, muscle


title: mouse16_vs_mixed_sex_pool: muscle

source_name: mouse16, muscle


title: mouse4_vs_mixed_sex_pool: muscle

source_name: mouse4, muscle


title: mouse3_vs_mixed_sex_pool: muscle

source_name: mouse3, muscle


title: mouse9_vs_mixed_sex_pool: muscle

source_name: mouse9, muscle


title: mouse18_vs_mixed_sex_pool: muscle

source_name: mouse18, muscle


title: mouse12_vs_mixed_sex_pool: muscle

source_name: mouse12, muscle


title: mouse10_vs_mixed_sex_pool: muscle

source_name: mouse10, muscle


title: mouse13_vs_mixed_sex_pool: muscle

source_name: mouse13, muscle


title: mouse7_vs_mixed_sex_pool: muscle

source_name: mouse7, muscle


title: mouse17_vs_mixed_sex_pool: muscle

source_name: mouse17, muscle


title: mouse11_vs_mixed_sex_pool: muscle

source_name: mouse11, muscle


title: mouse1_vs_mixed_sex_pool: muscle

source_name: mouse1, muscle


title: mouse6_vs_mixed_sex_pool: muscle

source_name: mouse6, muscle


title: mouse2_vs_mixed_sex_pool: muscle

source_name: mouse2, muscle


title: mouse112_vs_mixed_sex_pool: brain

source_name: mouse112, brain

source_name: reference pool (mixed sex, brain)


title: mouse111_vs_mixed_sex_pool: brain

source_name: mouse111, brain


title: mouse8_vs_mixed_sex_pool: muscle

source_name: mouse8, muscle

source_name: reference pool (mixed sex, muscle)


title: mouse114_vs_mixed_sex_pool: brain

source_name: mouse114, brain


title: mouse113_vs_mixed_sex_pool: brain

source_name: mouse113, brain


title: mouse5_vs_mixed_sex_pool: muscle

source_name: mouse5, muscle


title: mouse109_vs_mixed_sex_pool: brain

source_name: mouse109, brain


title: mouse110_vs_mixed_sex_pool: brain

source_name: mouse110, brain


title: mouse115_vs_mixed_sex_pool: brain

source_name: mouse115, brain


title: mouse108_vs_mixed_sex_pool: brain

source_name: mouse108, brain


title: mouse107_vs_mixed_sex_pool: brain

source_name: mouse107, brain


title: mouse103_vs_mixed_sex_pool: brain

source_name: mouse103, brain


title: mouse104_vs_mixed_sex_pool: brain

source_name: mouse104, brain


title: mouse95_vs_mixed_sex_pool: brain

source_name: mouse95, brain


title: mouse106_vs_mixed_sex_pool: brain

source_name: mouse106, brain


title: mouse99_vs_mixed_sex_pool: brain

source_name: mouse99, brain


title: mouse100_vs_mixed_sex_pool: brain

source_name: mouse100, brain

source_name: reference pool (mixed sex, brain)


title: mouse96_vs_mixed_sex_pool: brain

source_name: mouse96, brain


title: mouse102_vs_mixed_sex_pool: brain

source_name: mouse102, brain


title: mouse98_vs_mixed_sex_pool: brain

source_name: mouse98, brain


title: mouse105_vs_mixed_sex_pool: brain

source_name: mouse105, brain


title: mouse94_vs_mixed_sex_pool: brain

source_name: mouse94, brain


title: mouse93_vs_mixed_sex_pool: brain

source_name: mouse93, brain


title: mouse97_vs_mixed_sex_pool: brain

source_name: mouse97, brain


title: mouse90_vs_mixed_sex_pool: brain

source_name: mouse90, brain


title: mouse91_vs_mixed_sex_pool: brain

source_name: mouse91, brain


title: mouse83_vs_mixed_sex_pool: brain

source_name: mouse83, brain


title: mouse89_vs_mixed_sex_pool: brain

source_name: mouse89, brain


title: mouse85_vs_mixed_sex_pool: brain

source_name: mouse85, brain


title: mouse84_vs_mixed_sex_pool: brain

source_name: mouse84, brain


title: mouse87_vs_mixed_sex_pool: brain

source_name: mouse87, brain


title: mouse101_vs_mixed_sex_pool: brain

source_name: mouse101, brain


title: mouse86_vs_mixed_sex_pool: brain

source_name: mouse86, brain


title: mouse88_vs_mixed_sex_pool: brain

source_name: mouse88, brain

source_name: reference pool (mixed sex, brain)


title: mouse82_vs_mixed_sex_pool: brain

source_name: mouse82, brain


title: mouse92_vs_mixed_sex_pool: brain

source_name: mouse92, brain


title: mouse79_vs_mixed_sex_pool: brain

source_name: mouse79, brain


title: mouse14_vs_mixed_sex_pool: muscle

source_name: mouse14, muscle

source_name: reference pool (mixed sex, muscle)


title: mouse81_vs_mixed_sex_pool: brain

source_name: mouse81, brain


title: mouse75_vs_mixed_sex_pool: brain

source_name: mouse75, brain


title: mouse78_vs_mixed_sex_pool: brain

source_name: mouse78, brain


title: mouse76_vs_mixed_sex_pool: brain

source_name: mouse76, brain


title: mouse77_vs_mixed_sex_pool: brain

source_name: mouse77, brain


title: mouse71_vs_mixed_sex_pool: brain

source_name: mouse71, brain


title: mouse69_vs_mixed_sex_pool: brain

source_name: mouse69, brain


title: mouse74_vs_mixed_sex_pool: brain

source_name: mouse74, brain


title: mouse70_vs_mixed_sex_pool: brain

source_name: mouse70, brain


title: mouse68_vs_mixed_sex_pool: brain

source_name: mouse68, brain